SMED30033382

Overview


Name	SMED30033382
Smed ID	SMED30033382
Length (bp)	1354

Neoblast Clusters

▻ Sub-lethal Irradiated Surviving X1 and X2 Cell Population

Overview

Single cell RNA-seq of pluripotent neoblasts and its early progenies

We isolated X1 neoblasts cells enriched in high piwi-1 expression (Neoblast Population), and profiled ∼7,614 individual cells via scRNA-seq. Unsupervised analyses uncovered 12 distinct classes from 7,088 high-quality cells. We designated these classes Nb1 to Nb12 and ordered them based on high (Nb1) to low (Nb12) piwi-1 expression levels. We further defined groups of genes that best classified the cells parsed into 12 distinct cell clusters to generate a scaled expression heat map of discriminative gene sets for each cluster. Expression of each cluster’s gene signatures was validated using multiplex fluorescence in situ hybridization (FISH) co-stained with piwi-1 and largely confirmed the cell clusters revealed by scRNA-seq.

We also tested sub-lethal irradiation exposure. To profile rare pluripotent stem cells (PSCs) and avoid interference from immediate progenitor cells, we determined a time point after sub-lethal irradiation (7 DPI) with minimal piwi-1+ cells, followed by isolation and single-cell RNA-seq of 1,200 individual cells derived from X1 (Piwi-1 high) and X2 (Piwi-1 low) cell populations (Sub-lethal Irradiated Surviving X1 and X2 Cell Population)

Explore this single cell expression dataset with our NB Cluster Shiny App

Neoblast Population

t-SNE plot shows two-dimensional representation of global gene expression relationships among all neoblasts (n = 7,088 after filter). Cluster identity was assigned based on the top 10 marker genes of each cluster (Table S2), followed by inspection of RNA in situ hybridization patterns. Neoblast groups, Nb.

Expression of SMED30033382 (SMED30033382) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30033382 (SMED30033382) in cells (dots) of each of the 12 neoblast clusters.

Sub-lethal Irradiated Surviving X1 and X2 Cell Population

t-SNE plot of surviving X1 and X2 cells (n = 1,039 after QC filter) after sub-lethal irradiation. Colors indicate unbiased cell classification via graph-based clustering. SL, sub-lethal irradiated cell groups.

Expression of SMED30033382 (SMED30033382) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30033382 (SMED30033382) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

Embryonic Expression

Davies et. al., 2017

Hover the mouse over a column in the graph to view average RPKM values per sample.
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Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult.
For further information about sample preparation and analysis for the single animal RNA-Seq experiment, please refer to the Materials and Methods

Anatomical Expression

PAGE et. al., 2020

SMED30033382

has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGE

PAGE Curations: 1

Expressed In	Reference Transcript	Gene Models	Published Transcript	Transcriptome	Publication	Specimen	Lifecycle	Evidence
parenchyma	SMED30033382		dd_Smed_v4_22854_0_1	dd_Smed_v4	PMID:29674431 Fincher et al., 2018

Note: Hover over icons to view figure legend

Alignments

SMED30033382 aligns in the following genomic locations:


Alignment Location	Alignment Score
v31.002094:65974..67357 +	5878
v31.016188:5892..7751 -	4739
v31.031574:5242..7096 -	4715

Homology

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BLAST of SMED30033382 vs. Ensembl Zebrafish
Match: CABZ01072083.2 (dual specificity phosphatase 26 [Source:NCBI gene;Acc:570815])

HSP 1 Score: 99.3673 bits (246), Expect = 7.995e-22
Identity = 58/163 (35.58%), Postives = 88/163 (53.99%), Query Frame = -2

Query:  358 YSYRKVTTIELAFMLYFRKPLLNIIKKWTNKERKRVFGFAWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYS-VLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG 843
            ++      I+  F L+F   +  ++ + +N E KRV+G AWK++D  +L  FIG+LILIGVY+SK+E +  LW    G  I         FK++S V+ F        +KS DK  P+   ++ W   +  +Y P   +T+D+ LV  RGRC FK Y+  KP 
Sbjct:  117 FACSNAQDIKSTFELFFPDEIKEMLMQISNLEGKRVYGAAWKDLDWTDLQAFIGILILIGVYRSKHESVDSLWDGVLGRPIFRATMALYTFKSWSRVICFRKRDPEPGQKSGDKLAPILNVWDKWVERLPLMYNPGQNLTVDKCLVPFRGRCPFKIYMQCKPA 279

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BLAST of SMED30033382 vs. Ensembl Zebrafish
Match: si:ch211-130m23.5 (si:ch211-130m23.5 [Source:ZFIN;Acc:ZDB-GENE-131121-298])

HSP 1 Score: 50.8322 bits (120), Expect = 2.716e-6
Identity = 48/166 (28.92%), Postives = 77/166 (46.39%), Query Frame = -2

Query:  361 FMLYFRKPLLNIIKKWTNKE---RKRVFGFA---WKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYSVLRFGDATRRR---ERKSE--------DK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKP 807
            F L F   L   + + TN     R+R  G +   W   D +E+  ++G+ IL+G+  ++  +    W  A+ I I    +     KT +  RF    +     +R+SE        D  Y +R   ++    M D Y+P+ C+TIDE  V  +GR +  QY+PSKP
Sbjct:  197 FRLLFPDSLFKHMVEQTNNYALYRQRRSGRSDAHWHPTDIREMRAYVGLNILMGI--NQLPDYGMYW--ASDIFIGNAGFK----KTMTARRFEKLNQHLHLCDRESEPSKGELGYDGLYKIRPLLDMVGNTMWDAYLPNRCLTIDECSVASKGRFSPTQYMPSKP 354

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BLAST of SMED30033382 vs. Ensembl Xenopus
Match: ENSXETT00000024424.1 (pep primary_assembly:Xenopus_tropicalis_v9.1:KV461698.1:3132:4553:-1 gene:ENSXETG00000015301.1 transcript:ENSXETT00000024424.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 49.6766 bits (117), Expect = 4.966e-6
Identity = 34/126 (26.98%), Postives = 60/126 (47.62%), Query Frame = -2

Query:  364 AWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYSVLRF----GDATR-RRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSK 726
            AW   D  E+ +F+G+ + +G+ K+ + E          I + +   P   ++   +LRF     +AT    +    D+ + +R      +    ++Y P   + IDE L+  +GR AF+QYIPSK
Sbjct:  154 AWHPTDIAEMKKFLGLTLAMGLIKANSLESYWDTTTVLSIPVFSATMPRNRYQL--LLRFLHFNNNATAVPPDVPGHDRLHKLRPLINSLSERCGEVYTPSQNICIDESLLLFKGRIAFRQYIPSK 277

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BLAST of SMED30033382 vs. Ensembl Xenopus
Match: dlgap5 (discs large homolog associated protein 5 [Source:Xenbase;Acc:XB-GENE-481549])

HSP 1 Score: 49.2914 bits (116), Expect = 8.466e-6
Identity = 40/163 (24.54%), Postives = 71/163 (43.56%), Query Frame = -2

Query:  364 FMLYFRKPLLNIIKKWTNKERKRVFGF----------AWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYSVLRF----GDATRRRER-KSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSK 807
            F LY  + +L  +  +TN   ++              AW   D  E+ +F+G+ + +G+ K+ + E          I + +   P   ++   +LRF     +AT         D+ + +R      +    ++Y P   + IDE L+  +GR AF+QYIPSK
Sbjct:  117 FQLYITEAILQDMVLYTNLYAEQYLAHNPLPRYARAQAWHPTDIAEMKKFLGLTLAMGLIKANSLESYWDTTTVLSIPVFSATMPRNRYQL--LLRFLHFNNNATAVPPYVPGHDRLHKLRPLINSLSERCGEVYTPSQNICIDESLLLFKGRIAFRQYIPSK 277

[Close]

BLAST of SMED30033382 vs. Ensembl Xenopus
Match: npffr2 (neuropeptide FF receptor 2 [Source:Xenbase;Acc:XB-GENE-994428])

HSP 1 Score: 49.2914 bits (116), Expect = 9.726e-6
Identity = 30/82 (36.59%), Postives = 40/82 (48.78%), Query Frame = -2

Query:  319 LRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKP---GWSFVWRRCMESNY 555
            LRF D   R ER   DK   + +    +N    + + P   MTIDEQL   + RC F QY+ +KP   G  F   R +E+ Y
Sbjct:   48 LRFDDKDTRAERVKTDKFAAISDIRTRFNKNCAESFTPGEHMTIDEQLFPTKVRCPFTQYVATKPDKFGIKFWMARDLETKY 129

[Close]

BLAST of SMED30033382 vs. TrEMBL
Match: A0A2I4AJB0 (piggyBac transposable element-derived protein 4-like OS=Austrofundulus limnaeus OX=52670 GN=LOC106511363 PE=4 SV=1)

HSP 1 Score: 121.709 bits (304), Expect = 1.658e-27
Identity = 71/186 (38.17%), Postives = 102/186 (54.84%), Query Frame = -2

Query:  358 IPSVQTG*TGNQNILK-----ERYSYRKVTTIELAFMLYFRKPLLNIIKKWTNKERKRVFGFAWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYS-VLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG 897
            +P    G T   NI+K      R++  +V+ I++ F L+    L  +I   TN E K+V G  WK+IDE  L  +IGVL+L GVY+S NE    LW A+ G NI         F+  S VLRF +   R  R   DK  P+R+ +E W   +  ++ P   +T+DE+ +  RG+C F+QY+PSKPG
Sbjct:   80 VPPDVHGRTAVANIIKMTPGVTRFALTRVSDIKMCFDLFLPLSLKTVIIAMTNLEGKKVHGNTWKDIDEMYLDAYIGVLLLAGVYRSSNEATESLWDASTGRNIFRATMSLQTFQMISRVLRFDN---RDTRAKSDKLVPIRDVWERWVQLLPLMFNPGPEVTVDERFLPFRGKCPFRQYMPSKPG 262

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BLAST of SMED30033382 vs. TrEMBL
Match: A0A0S7LTZ7 (PGBD4 (Fragment) OS=Poeciliopsis prolifica OX=188132 GN=PGBD4 PE=4 SV=1)

HSP 1 Score: 122.865 bits (307), Expect = 2.770e-27
Identity = 65/164 (39.63%), Postives = 94/164 (57.32%), Query Frame = -2

Query:  358 RYSYRKVTTIELAFMLYFRKPLLNIIKKWTNKERKRVFGFAWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYS-VLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG 846
            RY+      I   F L+    +  II + TN E    +G  WK++DE +L  ++G+LIL GVY+S+ E  + LW A NG  I     P  +F TYS ++RF D   R  R++ DK  P+R+ ++ W   +  +Y P   +T+DEQLV  RGRC F+QY+PSKP 
Sbjct:   91 RYAVSHARDIVSTFYLFITPAIEKIILEMTNLEGFHKYGNGWKKMDEIDLQAYLGLLILAGVYRSRGEAAASLWDAENGRPIFRATMPLKLFHTYSRLIRFDDRESRPARRATDKLAPIRDVWDKWVERLPYLYNPGPDVTVDEQLVPFRGRCPFRQYMPSKPA 254

[Close]

BLAST of SMED30033382 vs. TrEMBL
Match: A0A4U5TWQ5 (PiggyBac transposable element-derived protein 4 OS=Collichthys lucidus OX=240159 GN=D9C73_028349 PE=4 SV=1)

HSP 1 Score: 125.946 bits (315), Expect = 3.831e-27
Identity = 71/182 (39.01%), Postives = 102/182 (56.04%), Query Frame = -2

Query:  358 QTG*TGNQNILK-----ERYSYRKVTTIELAFMLYFRKPLLNIIKKWTNKERKRVFGFAWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYS-VLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG 885
            Q G    QN++K      RY+      I   F L+    +  II + TN E  R +G +WK++DE +L  ++G+LIL GVY+S+ E  + LW A +G +I     P  +F TYS +LRF D   R  R+  DK   +RE ++ W   +  +Y P   +T+DEQLV  RGRC F+QY+PSKP 
Sbjct:   79 QHGRHAEQNVIKMTPGPTRYAVSHAHDIVSTFYLFITPAIEKIILEMTNLEGFRKYGDSWKKMDETDLQAYLGLLILAGVYRSRGEAAASLWDAESGRSIFRATMPLKLFHTYSRLLRFDDRESRPARRVTDKLAAIREVWDKWVERLPYLYNPGPDVTVDEQLVPFRGRCPFRQYMPSKPA 260

[Close]

BLAST of SMED30033382 vs. TrEMBL
Match: A0A3B3INT3 (DDE_Tnp_1_7 domain-containing protein OS=Oryzias latipes OX=8090 GN=LOC101160710 PE=4 SV=1)

HSP 1 Score: 122.094 bits (305), Expect = 4.513e-26
Identity = 69/185 (37.30%), Postives = 100/185 (54.05%), Query Frame = -2

Query:  358 PSVQTG*TGNQNILK-----ERYSYRKVTTIELAFMLYFRKPLLNIIKKWTNKERKRVFGFAWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYS-VLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG 894
            P    G   + NI+K      R++  +V  I+ AF L+  +P+  II   TN E +RVF   WK +D+ +L  +IG+LIL GVY+SK E  S LW   NG  I         F   S V+RF +   R  R+  DK   +R+ ++ W   +  +Y P   +T+DE+LV  RGRC F+QY+P+KP 
Sbjct:   91 PHQSRGRLSSSNIIKMTPGPTRFAVTRVDDIQSAFQLFISQPIERIILDMTNLEGRRVFQEKWKSLDQTDLNAYIGILILAGVYRSKGEATSSLWNEENGRPIFRATMSLETFHMISRVIRFDNRDTRVGRRESDKLAAIRDVWDKWVEILPLLYNPGPHVTVDERLVPFRGRCPFRQYMPNKPA 275

[Close]

BLAST of SMED30033382 vs. TrEMBL
Match: A0A3P9LEJ3 (Uncharacterized protein OS=Oryzias latipes OX=8090 PE=4 SV=1)

HSP 1 Score: 120.553 bits (301), Expect = 5.285e-26
Identity = 69/181 (38.12%), Postives = 100/181 (55.25%), Query Frame = -2

Query:  316 RYSYRKVTTIELAFMLYFRKPLLNIIKKWTNKERKRVFGFAWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYS-VLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG--WSFVWRRC-MESNYS 846
            R++  +V  I+ AF L+  +P+  II   TN E +RVF   WK +D+ +L  +IG+LIL GVY SK E  S LW   NG  I         F   S V+RF +   R  R+  DK   +R+ ++ W   +  +Y P   +T+DE+LV  RGRC F+QY+P+KP      +W  C  +SNY+
Sbjct:    7 RFAVTRVDDIQSAFQLFISQPIERIILDMTNLEGRRVFQEKWKSLDQTDLNAYIGILILAGVYSSKGEATSSLWNEENGRPIFRATMSLETFHMISRVIRFDNRDTRVGRRESDKLAAIRDLWDKWVEILPLLYNPGPHVTVDERLVPFRGRCPFQQYMPNKPAKYGIKIWAACDAKSNYA 187

[Close]

BLAST of SMED30033382 vs. Ensembl Cavefish
Match: nsd3 (nuclear receptor binding SET domain protein 3 [Source:ZFIN;Acc:ZDB-GENE-050324-2])

HSP 1 Score: 98.9821 bits (245), Expect = 7.512e-22
Identity = 56/164 (34.15%), Postives = 84/164 (51.22%), Query Frame = -2

Query:  358 RYSYRKVTTIELAFMLYFRKPLLNIIKKWTNKERKRVFGFAWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYSV-LRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG 846
            RY+  ++  +  +F L+F   ++ +I + TN   +R     W ++DE E+  ++G+LIL GVY+SK E    LW   NG  +         F+  S  LRF D   R  R  EDK       ++ W   +  ++ P   + +DEQLV  RGRC F QY+PSKP 
Sbjct:  316 RYAITRIHDVASSFDLFFTPDMIQLILQMTNLHGRRSVS-GWSDVDETEIRAYMGLLILAGVYRSKGESTRSLWDDQNGRPVFRATMSHKRFQLISASLRFDDRLTRPCRHKEDKLSAFCNMWDKWVQRLPLLFNPGENICVDEQLVPFRGRCKFGQYMPSKPA 478

[Close]

BLAST of SMED30033382 vs. Ensembl Cavefish
Match: si:ch211-130m23.5 (piggyBac transposable element-derived protein 4-like [Source:NCBI gene;Acc:103027433])

HSP 1 Score: 51.9878 bits (123), Expect = 1.050e-6
Identity = 40/160 (25.00%), Postives = 74/160 (46.25%), Query Frame = -2

Query:  361 FMLYFRKPLLNIIKKWTNKE---RKRVFGFA---WKEIDEKELTRFIGVLILIGVYKSKNEEI---SQLWCAANGI--NILTRLYPELVFKTYSVLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKP 807
            F L F   L   + + TN     R+R  G +   W   D +E+  ++G+ IL+G+ +  +  +   S ++    G    +  R + +L    +   R  + ++       D  Y +R   ++    M D Y+P+ C+T+DE  +  +GR +  QY+PSKP
Sbjct:  205 FRLLFPDSLFEHMVEQTNNYALYRQRRSGRSDPHWHPTDVREMRAYVGLNILMGINQLPDYGMYWASDIFIGNAGFKKTMTARRFEKLNQNLHLCDRLSEPSK--GELGYDGLYKIRPLLDMVGNTMWDSYLPNRCLTVDECAIATKGRFSPTQYMPSKP 362

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BLAST of SMED30033382 vs. Ensembl Cavefish
Match: ENSAMXT00000039501.1 (pep primary_assembly:Astyanax_mexicanus-2.0:19:21564630:21575712:1 gene:ENSAMXG00000031759.1 transcript:ENSAMXT00000039501.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 51.6026 bits (122), Expect = 1.621e-6
Identity = 41/161 (25.47%), Postives = 68/161 (42.24%), Query Frame = -2

Query:  373 RYSYRKVTTIELAFMLYFRKPLLNIIKKWTNKE--RKRVFGFAWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKT-YSVLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYI 846
            +Y+  K+T+   + M    + +  +I+K T  E  R    GF   ++   EL  F+ +  + G+   K  ++   W +  G  I  +      F+     LRF D   R  R   DK   + E F  +       Y+P   +T+ EQL   + RC F QY+
Sbjct:  557 KYAMDKITSPLSSLMCLIDEEMWEMIQKHTQAEIDRSDTDGF---KLTAAELKAFVALTYMRGITGGKTMKLDDYWSSDLGNPIFLKTLTRQRFRDIMRHLRFDDKNTRAARHETDKFAMISELFYKFVQNSIASYVPGENITVGEQLFPTKARCRFAQYV 714

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BLAST of SMED30033382 vs. Ensembl Sea Lamprey
Match: ENSPMAT00000007705.1 (pep scaffold:Pmarinus_7.0:GL484572:34:4229:-1 gene:ENSPMAG00000006959.1 transcript:ENSPMAT00000007705.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 46.9802 bits (110), Expect = 5.134e-6
Identity = 38/143 (26.57%), Postives = 62/143 (43.36%), Query Frame = -2

Query:  334 WKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYSVLRFGD-----------ATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG-WSF-VWRRC 723
            W     +E+  F  V I++G+     +++ ++WC  +G N   R   E V  T +  R+              T  R ++  D  Y VR   E         Y P   +++DE ++  +GR  FKQ++P+KP  W   VW  C
Sbjct:    1 WSPTTSREMKAFFAVAIMMGI-----KDLPRVWCYWSG-NPALRC--EWVSGTMTHTRYSKVSQYLHARNNVGTPARGQRGYDPIYKVRNVVEEVRANFSRHYSPRRELSVDEGMIPFKGRLFFKQHMPAKPTKWGVKVWELC 135

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BLAST of SMED30033382 vs. Ensembl Medaka
Match: ENSORLT00000037833.1 (piggyBac transposable element-derived protein 4-like [Source:NCBI gene;Acc:101160710])

HSP 1 Score: 122.094 bits (305), Expect = 1.699e-29
Identity = 69/185 (37.30%), Postives = 100/185 (54.05%), Query Frame = -2

Query:  358 PSVQTG*TGNQNILK-----ERYSYRKVTTIELAFMLYFRKPLLNIIKKWTNKERKRVFGFAWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYS-VLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG 894
            P    G   + NI+K      R++  +V  I+ AF L+  +P+  II   TN E +RVF   WK +D+ +L  +IG+LIL GVY+SK E  S LW   NG  I         F   S V+RF +   R  R+  DK   +R+ ++ W   +  +Y P   +T+DE+LV  RGRC F+QY+P+KP 
Sbjct:   91 PHQSRGRLSSSNIIKMTPGPTRFAVTRVDDIQSAFQLFISQPIERIILDMTNLEGRRVFQEKWKSLDQTDLNAYIGILILAGVYRSKGEATSSLWNEENGRPIFRATMSLETFHMISRVIRFDNRDTRVGRRESDKLAAIRDVWDKWVEILPLLYNPGPHVTVDERLVPFRGRCPFRQYMPNKPA 275

[Close]

BLAST of SMED30033382 vs. Ensembl Medaka
Match: ENSORLT00000029842.1 (piggyBac transposable element-derived protein 4 [Source:NCBI gene;Acc:101157644])

HSP 1 Score: 85.5001 bits (210), Expect = 2.277e-17
Identity = 60/203 (29.56%), Postives = 101/203 (49.75%), Query Frame = -2

Query:  361 VKYYIHFQNKVEICHAIPSVQTG*T-----GNQNILKERYSYRKVTTIELAFMLYFRKPLLNIIKKWTNKER-KRVFGF-AWKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINIL-TRLYPELVFKTYSVLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKP 945
            +K+  + +++  +  + P   +G T     G Q+IL              +F+L+F   +  +I   TN+    +       K +DE EL  ++G+LIL GVY+S+ E +  LW    G  I    +     ++  + LRF D + R  R + D+   VRE +E W   +  +Y     +T+DE++V  +GRC+F+QYIPSKP
Sbjct:  336 IKWSANERDRSSVRASPPHQASGPTTEAREGAQDILS-------------SFLLFFTPNVERLILIATNRHSADKAHALKTPKPMDEIELRAYVGLLILAGVYRSRGEALVSLWEPECGRPIFGATMSLRSFYQRSATLRFDDRSTRASRSASDRLAAVREVWEEWCDRLPRLYDIGPEVTVDERMVPFKGRCSFRQYIPSKP 525

[Close]

BLAST of SMED30033382 vs. Ensembl Medaka
Match: ENSORLT00000027888.1 (pep primary_assembly:ASM223467v1:17:9217998:9219211:-1 gene:ENSORLG00000025878.1 transcript:ENSORLT00000027888.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 57.3806 bits (137), Expect = 1.291e-8
Identity = 31/84 (36.90%), Postives = 49/84 (58.33%), Query Frame = -2

Query:  316 VLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG--WSFVWRRC-MESNYS 558
            V+RF +   R  R+  DK   +R+ ++ W   +  +Y P   +T+DE+LV  RGRC F+QY+P+KP      +W  C  +SNY+
Sbjct:   12 VIRFDNRDTRVGRRESDKLAAIRDLWDKWVEILPLLYNPGPHVTVDERLVPFRGRCPFQQYMPNKPAKYGIKIWAACDAKSNYA 95

[Close]

BLAST of SMED30033382 vs. Ensembl Medaka
Match: si:ch211-130m23.5 (piggyBac transposable element-derived protein 4-like [Source:NCBI gene;Acc:105354747])

HSP 1 Score: 48.9062 bits (115), Expect = 9.366e-6
Identity = 42/160 (26.25%), Postives = 73/160 (45.62%), Query Frame = -2

Query:  361 FMLYFRKPLLNIIKKWTNKE---RKRVFGFA---WKEIDEKELTRFIGVLILIGVYKSKNEEI---SQLWCAANGI--NILTRLYPELVFKTYSVLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKP 807
            F L F   L   + + TN     R+R  G +   W   D +E+  ++G+ IL+G+ +  +  +   S ++    G    +  R + +L    Y  L   +A   R  +  D  Y +R   ++    M D Y P+ C+TID+  +  +GR +  QY+ SKP
Sbjct:  201 FRLLFPDSLFEHMVEQTNNYALYRQRRSGKSDPHWHPTDVREMKAYVGLNILMGINQLPDTGMYWASDIFIGNAGFKKTMTARRFEKLT--QYLQLCDREAEPVRGERCYDGLYKIRPLLDVVENTMWDTYTPNRCLTIDKCSIATKGRFSPTQYMSSKP 358

[Close]

BLAST of SMED30033382 vs. Planmine SMEST
Match: SMESG000081807.1 (SMESG000081807.1)

HSP 1 Score: 82.0333 bits (201), Expect = 1.522e-16
Identity = 53/144 (36.81%), Postives = 75/144 (52.08%), Query Frame = -2

Query:  361 KWTNKERKRVFGFAWKEIDEKELTRF--------IGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTY-SVLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKP 765
            K TN+E  R  G +  E D K L  F        +G++IL+GV  SK E ++QLW    G  +L    P   F+ + S  RF D T R +R+  DK   +RE F+ +    +++Y P   + +DE  V  RG C F+ YIPSKP
Sbjct:    8 KHTNEELGRR-GQSTAEKDPKYLDDFTIVEMKAAVGIMILVGVMCSKKESLNQLWFEVYGRPLLRTTIPLNRFRIFLSSARFDDKTTRNDRQKTDKFAAIRELFDHFVDNRQELYTPSPYLCVDETQVEFRGGCPFRVYIPSKP 150

[Close]

BLAST of SMED30033382 vs. Planmine SMEST
Match: SMESG000080622.1 (SMESG000080622.1)

HSP 1 Score: 67.781 bits (164), Expect = 3.596e-12
Identity = 45/120 (37.50%), Postives = 59/120 (49.17%), Query Frame = -2

Query:  319 GVYKSKNEEISQLWCAANGINILTRLYPELVFKTYS-VLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKP---GWSFVWRRCMESNY 666
            G+Y++  E I +LW A +G  I         FK    +LRF +   R+ R   DK   VR   + +    +  Y+P   +TIDEQL   RGRC F QY+PSKP   G  F W  C   NY
Sbjct:  108 GIYRAAGESIDELWSAEHGRFIFRNTMSLNRFKLIRRILRFDNPDTRKGRLLRDKFAAVRLLIDNFVENSQKCYMPGESVTIDEQLYPYRGRCKFVQYMPSKPSKYGLKF-WAVCDSQNY 226

[Close]

BLAST of SMED30033382 vs. Planmine SMEST
Match: SMESG000030754.1 (SMESG000030754.1)

HSP 1 Score: 60.4622 bits (145), Expect = 9.416e-10
Identity = 38/115 (33.04%), Postives = 56/115 (48.70%), Query Frame = -2

Query:  361 ELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTY-SVLRFGDATRRRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKP 702
            E+   +G++IL+ V  SK E ++QLW    G  +L    P   F+ + S  RF D T R +R+  DK   +RE F+ +    ++                 RGRC F+ YIPSKP
Sbjct:  162 EMKAAVGIMILVDVMCSKRESLNQLWSEVYGRPLLRTTMPLNRFRIFLSCARFDDKTTRNDRQKTDKLAAIRELFDHFVDNGQE----------------FRGRCPFRVYIPSKP 260

[Close]

BLAST of SMED30033382 vs. Planmine SMEST
Match: SMESG000067117.1 (SMESG000067117.1)

HSP 1 Score: 55.4546 bits (132), Expect = 4.547e-8
Identity = 39/125 (31.20%), Postives = 64/125 (51.20%), Query Frame = -2

Query:  364 WKEIDEKELTRFIGVLILIGVYKSKNEEISQLWCAANGINILTRLYPELVFKTYSVLRFGDATR-----RRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSK 723
            W ++   EL+ F  +++L G+  SKNE +   W     +N  T ++P    KT++  RF    R       E+K+ DK + +     +     +++ IPD  + IDE L+  +GR +FKQYIP K
Sbjct:  106 WFDVTSNELSVFFAIVMLTGLV-SKNE-LKDYWSVDPLLN--TPIFP----KTFTRNRFLQIMRFLHFANNEQKTNDKLFKIGNVVNMVKEKFKNVIIPDRLICIDESLMLWKGRLSFKQYIPLK 222

[Close]

BLAST of SMED30033382 vs. Planmine SMEST
Match: SMESG000070813.1 (SMESG000070813.1)

HSP 1 Score: 53.5286 bits (127), Expect = 1.524e-7
Identity = 29/68 (42.65%), Postives = 40/68 (58.82%), Query Frame = -2

Query:  358 VLRFGDATR-RRERKSEDK*YPVRECFEIWNTYMRDIYIPDWCMTIDEQLVTIRGRCAFKQYIPSKPG 558
              R G  TR  R++K+ DK   +R  F+ +    ++ YIP   +TIDE L T RGRC F+ Y+ SKPG
Sbjct:   59 TFRSGMVTRDERKQKNGDKLEAIRSTFDQFVENCQNAYIPKSVITIDECLATYRGRCPFRVYMKSKPG 126

The following BLAST results are available for this feature:

BLAST of SMED30033382 vs. Ensembl Human
BLAST of SMED30033382 vs. Ensembl Celegans
BLAST of SMED30033382 vs. Ensembl Fly
BLAST of SMED30033382 vs. Ensembl Zebrafish
BLAST of SMED30033382 vs. Ensembl Xenopus
BLAST of SMED30033382 vs. Ensembl Mouse
BLAST of SMED30033382 vs. UniProt/SwissProt
BLAST of SMED30033382 vs. TrEMBL
BLAST of SMED30033382 vs. Ensembl Cavefish
BLAST of SMED30033382 vs. Ensembl Sea Lamprey
BLAST of SMED30033382 vs. Ensembl Yeast
BLAST of SMED30033382 vs. Ensembl Nematostella
BLAST of SMED30033382 vs. Ensembl Medaka
BLAST of SMED30033382 vs. Planmine SMEST

BLAST of SMED30033382 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30033382 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30033382 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30033382 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 2


Match Name	E-value	Identity	Description
CABZ01072083.2	7.995e-22	35.58	dual specificity phosphatase 26 [Source:NCBI gene;...	[more]
si:ch211-130m23.5	2.716e-6	28.92	si:ch211-130m23.5 [Source:ZFIN;Acc:ZDB-GENE-131121...	[more]

BLAST of SMED30033382 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 3


Match Name	E-value	Identity	Description
ENSXETT00000024424.1	4.966e-6	26.98	pep primary_assembly:Xenopus_tropicalis_v9.1:KV461...	[more]
dlgap5	8.466e-6	24.54	discs large homolog associated protein 5 [Source:X...	[more]
npffr2	9.726e-6	36.59	neuropeptide FF receptor 2 [Source:Xenbase;Acc:XB-...	[more]

BLAST of SMED30033382 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30033382 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30033382 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5


Match Name	E-value	Identity	Description
A0A2I4AJB0	1.658e-27	38.17	piggyBac transposable element-derived protein 4-li...	[more]
A0A0S7LTZ7	2.770e-27	39.63	PGBD4 (Fragment) OS=Poeciliopsis prolifica OX=1881...	[more]
A0A4U5TWQ5	3.831e-27	39.01	PiggyBac transposable element-derived protein 4 OS...	[more]
A0A3B3INT3	4.513e-26	37.30	DDE_Tnp_1_7 domain-containing protein OS=Oryzias l...	[more]
A0A3P9LEJ3	5.285e-26	38.12	Uncharacterized protein OS=Oryzias latipes OX=8090...	[more]

BLAST of SMED30033382 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 3


Match Name	E-value	Identity	Description
nsd3	7.512e-22	34.15	nuclear receptor binding SET domain protein 3 [Sou...	[more]
si:ch211-130m23.5	1.050e-6	25.00	piggyBac transposable element-derived protein 4-li...	[more]
ENSAMXT00000039501.1	1.621e-6	25.47	pep primary_assembly:Astyanax_mexicanus-2.0:19:215...	[more]

BLAST of SMED30033382 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 1


Match Name	E-value	Identity	Description
ENSPMAT00000007705.1	5.134e-6	26.57	pep scaffold:Pmarinus_7.0:GL484572:34:4229:-1 gene...	[more]

BLAST of SMED30033382 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30033382 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30033382 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 4


Match Name	E-value	Identity	Description
ENSORLT00000037833.1	1.699e-29	37.30	piggyBac transposable element-derived protein 4-li...	[more]
ENSORLT00000029842.1	2.277e-17	29.56	piggyBac transposable element-derived protein 4 [S...	[more]
ENSORLT00000027888.1	1.291e-8	36.90	pep primary_assembly:ASM223467v1:17:9217998:921921...	[more]
si:ch211-130m23.5	9.366e-6	26.25	piggyBac transposable element-derived protein 4-li...	[more]

BLAST of SMED30033382 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5


Match Name	E-value	Identity	Description
SMESG000081807.1	1.522e-16	36.81	SMESG000081807.1	[more]
SMESG000080622.1	3.596e-12	37.50	SMESG000080622.1	[more]
SMESG000030754.1	9.416e-10	33.04	SMESG000030754.1	[more]
SMESG000067117.1	4.547e-8	31.20	SMESG000067117.1	[more]
SMESG000070813.1	1.524e-7	42.65	SMESG000070813.1	[more]

Analyses

This transcript is derived from or has results from the following analyses


Analysis Name	Date Performed
Embryonic Stages	2016-07-25
Schmidtea mediterranea smed_20140614 BLASTX Human e!99	2016-08-08
Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99	2016-08-08
Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL	2020-05-01
Schmidtea mediterranea Sexual smed_20140614 transcriptome	2016-07-25
Schmidtea mediteranean smed_20140614 Interproscan	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99	2020-05-08
Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99	2020-05-08
Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46	2020-05-08
Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46	2020-05-08
Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99	2020-05-08
Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST	2020-05-08

Sequences

The following sequences are available for this feature:

transcript sequence
protein sequence

transcript sequence

>SMED30033382 ID=SMED30033382|Name=SMED30033382|organism=Schmidtea mediterranea sexual|type=transcript|length=1354bp
GTAATATAAAAAGTAAATGAACATTTATCAATTAAAAAATAAAACAGGAA
AAATTACTTTTTTTGTGCATAAAATATATAATACAATAGAATGCTCAGTA
CAAACATTTTTTTGCATTCTTCGCATATTGTCTTTGTCCTTCTATCCTTT
TTCACAGAACAAATCGAACATCTTTTCTATGCTGGAGGGGTTTCCAAAAT
ACTAGTACTTGTTGATGGTTTAGGTTGGTTTTGCATCCCATCTCCAAATT
TGACTAATTGCTTCCCTAATTCAATTATGAAATCGCGTCGCCTTTTATAT
TTTGTAATGAAATTAGGAGTAATTGCTTTCCATACAACGTCTCCATACAA
AACTCCAACCTGGCTTTGACGGTATATATTGTTTGAACGCACATCTGCCG
CGAATTGTAACTAACTGTTCATCGATTGTCATACACCAATCAGGAATGTA
GATATCTCGCATGTATGTATTCCATATCTCAAAACATTCTCGTACTGGGT
ATTATTTGTCTTCAGATTTTCTTTCTCTTCTTCTAGTGGCATCGCCAAAT
CTTAAAACACTGTATGTTTTGAAAACGAGTTCGGGGTATAATCTTGTTAA
AATATTTATTCCATTTGCGGCACACCAAAGTTGAGAAATTTCTTCATTTT
TTGATTTATACACACCTATGAGAATTAATACTCCAATAAATCTTGTTAGC
TCTTTTTCATCAATTTCTTTCCATGCAAAACCGAAAACTCTCTTCCTTTC
TTTATTTGTCCATTTTTTTATGATATTCAAAAGTGGTTTGCGAAAATACA
GCATAAAAGCTAACTCAATTGTAGTAACTTTGCGATATGAATATCTTTCC
TTCAAAATATTTTGATTACCAGTTCAACCTGTTTGCACTGAAGGAATTGC
ATGACATATTTCTACTTTATTTTGGAAGTGTATGTAATATTTGACTCACT
ATTAGTTTCATTTTCATCACTTTTGTCATGTTGTTCGTCCTGCATATTCT
CTTCATCTTCCGAAAAACTTGATTCACTAAATGTTTGTTTATCTTCTTCC
TCATCATCTGATGATGATTCATAATCATTCCCATTGTCACTTTGTTCCTC
TACCTCGTGGGCTATTTCAGTATCATTCAAATATTTTCTTTTATATGCCA
TAAACATTTTATTAATAAATAATTGCAGAATAATTCACAAAGCACAGCGG
TTCAAACAGATTCACTATAGCAAAGATATGTTGTCACATGATTAGAATGC
ATTAAAACAAGTTTAAACTTGCAGAAAACATAATGGGTTCATTAGACCCT
TATGGTAGTTCTCAGTAGTTATCGTATAGCTCCTTATTTATAATTAATTT
TTGA

protein sequence of SMED30033382-orf-1

>SMED30033382-orf-1 ID=SMED30033382-orf-1|Name=SMED30033382-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=101bp
MLYFRKPLLNIIKKWTNKERKRVFGFAWKEIDEKELTRFIGVLILIGVYK
SKNEEISQLWCAANGINILTRLYPELVFKTYSVLRFGDATRRRERKSEDK
*

Annotated Terms

The following terms have been associated with this transcript:

Vocabulary: **INTERPRO**
Term	Definition
IPR032718	PGBD4_C_Znf-ribbon
IPR029526	PGBD

InterPro

Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	SIGNALP_EUK	SignalP-noTM	SignalP-noTM	coord: 1..27 score: 0.484

Main menu

SMED30033382

Zeng et. al., 2018

▻ Overview

▻ Neoblast Population

▻ Sub-lethal Irradiated Surviving X1 and X2 Cell Population

Overview

Single cell RNA-seq of pluripotent neoblasts and its early progenies

Explore this single cell expression dataset with our NB Cluster Shiny App

Neoblast Population

Sub-lethal Irradiated Surviving X1 and X2 Cell Population

Davies et. al., 2017

PAGE et. al., 2020

has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGE

PAGE Curations: 1

Owlery

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