SMED30001215

Overview
NameSMED30001215
Smed IDSMED30001215
Length (bp)2206
Neoblast Clusters

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


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 SMED30001215 (SMED30001215) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30001215 (SMED30001215) in cells (dots) of each of the 12 neoblast clusters.

 

back to top

 

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 SMED30001215 (SMED30001215) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30001215 (SMED30001215) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

back to top

 

Embryonic Expression

Davies et. al., 2017

Hover the mouse over a column in the graph to view average RPKM values per sample.
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset

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

 

back to top
Anatomical Expression

PAGE et. al., 2020



SMED30001215

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



PAGE Curations: 2

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
epidermisSMED30001215 dd_Smed_v4_14154_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30001215 dd_Smed_v4_14154_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
[Close]
BLAST of SMED30001215 vs. Ensembl Zebrafish
Match: cnbpa (CCHC-type zinc finger, nucleic acid binding protein a [Source:ZFIN;Acc:ZDB-GENE-030131-5045])

HSP 1 Score: 47.3654 bits (111), Expect = 4.356e-6
Identity = 22/67 (32.84%), Postives = 32/67 (47.76%), Query Frame = 1 
Query:  958 QCRTCGKPGHWESEC-------------FRNLTCTRFGKKGHTLNRCEVR--TCFTCGRQGHVAKDC 1113
            +C  CG+ GHW   C              ++L C R G++GH    CE     C+ C R GH+++DC
Sbjct:    7 ECFGCGRSGHWIKNCPNAGRGRGRGRGRGKDLFCYRCGEQGHIARDCEQTEDACYNCHRSGHISRDC 73
[Close]
BLAST of SMED30001215 vs. TrEMBL
Match: A0A2F0BA38 (Cellular nucleic acid-binding protein (Fragment) OS=Eschrichtius robustus OX=9764 GN=ESR_17783 PE=4 SV=1)

HSP 1 Score: 57.7658 bits (138), Expect = 3.742e-6
Identity = 24/56 (42.86%), Postives = 35/56 (62.50%), Query Frame = 1 
Query:  952 NKQCRTCGKPGHWESECFRNLTCTRFGKKGHTLNRCEVR--TCFTCGRQGHVAKDC 1113
            + +C  CG+ GHW  EC  ++ C R G+ GH    C+++   C+ CGR GH+AKDC
Sbjct:    3 SNECFKCGRSGHWARECPTDI-CYRCGESGHLAKDCDLQEDACYNCGRGGHIAKDC 57
[Close]
BLAST of SMED30001215 vs. TrEMBL
Match: A0A1E5S104 (Zinc finger protein GIS2 OS=Hanseniaspora uvarum OX=29833 GN=AWRI3580_g487 PE=4 SV=1)

HSP 1 Score: 57.7658 bits (138), Expect = 3.764e-6
Identity = 24/60 (40.00%), Postives = 37/60 (61.67%), Query Frame = 1 
Query:  949 QNKQCRTCGKPGHWESECFRNLT-----CTRFGKKGHTLNRCEVRTCFTCGRQGHVAKDC 1113
            ++K C  CGK GH ++EC   +T     C + G+ GH  N C++  C+ C +QGH++KDC
Sbjct:   22 ESKLCYNCGKTGHLKTECTEPITNDNKQCYKCGETGHLSNDCDILKCYNCQQQGHISKDC 81
[Close]
BLAST of SMED30001215 vs. Ensembl Sea Lamprey
Match: ENSPMAT00000003739.1 (pep scaffold:Pmarinus_7.0:GL499243:411:1384:-1 gene:ENSPMAG00000003418.1 transcript:ENSPMAT00000003739.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 47.7506 bits (112), Expect = 7.521e-7
Identity = 25/60 (41.67%), Postives = 32/60 (53.33%), Query Frame = 1 
Query:  961 CRTCGKPGHWESEC-FRNLTCTRFGKKGHTLNRC-EVR-------TCFTCGRQGHVAKDC 1113
            C  CG+ GH   EC     TC   GK GH    C E R       +C+TCG+QGH+A++C
Sbjct:   44 CYRCGEGGHIARECPLPQDTCYNCGKGGHIARECPEGRQDRGGGPSCYTCGKQGHLAREC 103

HSP 2 Score: 44.669 bits (104), Expect = 8.102e-6
Identity = 23/75 (30.67%), Postives = 32/75 (42.67%), Query Frame = 1 
Query:  952 NKQCRTCGKPGHWESEC-------------------FRNLTCTRFGKKGHTLNRCEV--RTCFTCGRQGHVAKDC 1113
            + +C  CG  GHW  EC                    R   C R G+ GH    C +   TC+ CG+ GH+A++C
Sbjct:    3 SNECFRCGGSGHWARECPNGAGGGRGPGGPVGRGGRGRGDGCYRCGEGGHIARECPLPQDTCYNCGKGGHIAREC 77
[Close]
BLAST of SMED30001215 vs. Ensembl Sea Lamprey
Match: ENSPMAT00000010393.1 (pep scaffold:Pmarinus_7.0:GL485791:8073:10868:-1 gene:ENSPMAG00000009411.1 transcript:ENSPMAT00000010393.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 44.2838 bits (103), Expect = 5.741e-6
Identity = 24/67 (35.82%), Postives = 31/67 (46.27%), Query Frame = 1 
Query:  961 CRTCGKPGHWESEC--------FRNLTCTRFGKKGHTLNRC-EVR-------TCFTCGRQGHVAKDC 1113
            C  CG+ GH   EC             C   GK GH    C E R       +C+TCG+QGH+A++C
Sbjct:   10 CYRCGEGGHIARECPLPQDSVSSNTAACYNCGKGGHIARECPEGRQDRGGGPSCYTCGKQGHLAREC 76
[Close]
BLAST of SMED30001215 vs. Ensembl Medaka
Match: cnbpa (CCHC-type zinc finger nucleic acid binding protein [Source:NCBI gene;Acc:101173222])

HSP 1 Score: 46.9802 bits (110), Expect = 8.861e-6
Identity = 24/75 (32.00%), Postives = 33/75 (44.00%), Query Frame = 1 
Query:  946 SQNKQCRTCGKPGHWESEC-------------FRNLTCTRFGKKGHTLNRCE------VRTCFTCGRQGHVAKDC 1113
            S N +C  CG+PGHW   C              R   C    + GH    C+       + C+TCG+ GH+A+DC
Sbjct:    4 SSNSECFGCGRPGHWVKHCPNASGTRGRGRGRGRGKACYNCHRSGHISRDCKEPKKEREQLCYTCGKAGHMARDC 78
[Close]
BLAST of SMED30001215 vs. Planmine SMEST
Match: SMESG000038549.1 (SMESG000038549.1)

HSP 1 Score: 410.223 bits (1053), Expect = 2.500e-124
Identity = 261/376 (69.41%), Postives = 304/376 (80.85%), Query Frame = 1 
Query: 1081 CGRQGHVAKDCXXXXXXXXXXXXXXXYVQVAPRQNVIEQGKQVNMMQEISQLKDMMSSMMRANQPNQRQQNIHMMQRVENTRNREVEVTRQRHVQDWQQLQMEEERVKQERFRQRQDNPPRINMLRMIKDVKEQYCYNIHKKSP*DXXXX-XXXXXXXXXXXPDKIINPTPSDKRRIQKIFLKKVKXXXXXXXXXXXXXXXXXXVKPASEKRELKQDNNKPTINEAKSESESETPTRGLMKSKTIQNFRINMLRHINDSVSEDGDSSETSSLMGEALRVSENEEQNKPIIRPISKWIYDRPPSPTERETELIDKLIETIPETLINEEFINNEVFKRYLKNILQLEGTRGDVIPEQEKLRIKEYLDKQKLEDITKFQ 2205
            CG+QGHVA +CRG NNQNQGPPRNNNYVQ+APRQ  +EQ KQVN+MQEIS LKDMM+ MMR NQ  Q+Q NIHMMQRVEN RNRE E T+Q+H QDWQQLQ+EEERV+QERF+Q+QDNPPRINM+RMIKDVKEQYCYNI+KK P D+L +   E+  E QT+PD+   PT +DKRR QKI L K+KERITREN+    N      K  +   ELK+D  + +I+  K E E  TP RGLMK KT +N RINMLR+I DS  EDG+ SETSSLMGEAL+VSENEEQNK IIRP+++W+ DRP SPTE E +LID+LIETIPETLINEEFINNE F+RY++NILQLEG +GDVIPEQEK R+K YLDKQKLEDITKFQ
Sbjct:  159 CGKQGHVANNCRGSNNQNQGPPRNNNYVQLAPRQPNVEQTKQVNVMQEISHLKDMMAKMMRTNQSQQQQSNIHMMQRVENVRNRETETTQQQHAQDWQQLQIEEERVRQERFKQQQDNPPRINMMRMIKDVKEQYCYNIYKKLPKDKLVKPELEKLGENQTEPDETFRPTKADKRRTQKILLGKIKERITRENKRPNENETIV-TKQTNGNSELKRDIIEKSIDNIKKEFE--TPPRGLMKVKTKRNLRINMLRNIRDSSPEDGEISETSSLMGEALQVSENEEQNKQIIRPMNRWVSDRPLSPTEGEIKLIDELIETIPETLINEEFINNEAFRRYMRNILQLEGAKGDVIPEQEKPRVKAYLDKQKLEDITKFQ 531

HSP 2 Score: 254.218 bits (648), Expect = 4.096e-71
Identity = 123/161 (76.40%), Postives = 137/161 (85.09%), Query Frame = 1 
Query:  346 MVKNRMPLYLCDSALDIFLEARERKKKLDTWNEIKEFLTTTFGVAKLTNQGMQELFSRKQRHGESNTMFASEIRRLAKTATEVKLAETHLIGIFVDGLRRPELRSVVGMQILATLDEAVAKANQAEIHLPTQIATMQDESMINAMTTKTQENEASSAKVNQ 828
            MVK RMPLYLCDSALDIFLEA+ER K L+ W EI+EFL  TFGVAKLTNQG+QELF+RKQRHGESNTMFASEIRRLAKTAT+ KL E HLIGIFVDGLRRPELRS VGMQ+L TLD+AVA+ANQAEIHLP+Q + MQDESMI  M  K +EN  + AK  +
Sbjct:    1 MVKTRMPLYLCDSALDIFLEAKERGKPLNNWKEIQEFLKLTFGVAKLTNQGIQELFNRKQRHGESNTMFASEIRRLAKTATDGKLDEVHLIGIFVDGLRRPELRSAVGMQMLTTLDKAVARANQAEIHLPSQNSLMQDESMIATMAAKPEENGQNDAKCGK 161
[Close]
BLAST of SMED30001215 vs. Planmine SMEST
Match: SMESG000009033.1 (SMESG000009033.1)

HSP 1 Score: 316.235 bits (809), Expect = 3.653e-92
Identity = 196/349 (56.16%), Postives = 234/349 (67.05%), Query Frame = 1 
Query: 1159 YVQVAPRQNVIEQGKQVNMMQEISQLKDMMSSMMRANQPNQRQQNIHMMQRVENTRNREVEVTRQRHVQDWQQLQMEEERVKQERFRQRQDNPPRINMLRMIKDVKEQYCYNIHKKSP*DXXXXXXXXXXXXXXXPDKIINPTPSDKRRIQKIFLKKVKXXXXXXXXXXXXXXXXXXVKPASEKRELKQDNNKPTINEAKSESESETPTRGLMKSKTIQNFRINMLRHINDSVSEDGDSSETSSLMGEALRVSENEEQNKPIIRPISKWIYDRPPSPTERETELIDKLIETIPETLINEEFINNEVFKRYLKNILQLEGTRGDVIPEQEKLRIKEYLDKQKLEDITKFQ 2205
            YVQ+APRQ  +EQ KQVN+MQEIS LKDMMS MMR +QP Q+Q NIHMMQRVE+ RNRE E+T+QRH QDW QLQMEEERV+QER++  +  P                      + P            E QT+PD+ I PT +DKRR QKI L K+KERITRENE+   N    E K  +   +LK+D  + +I  +  E E ETP RGL+K +T +N RINMLR+I DS+ EDG++SETSSLMGEALRVSENEEQNK IIRP+++WI+DRPPSPTE E +LID+LIETI ETLINEEFINNE                       EK R+K YLDKQKLEDITKFQ
Sbjct: 1413 YVQLAPRQPNVEQTKQVNVMQEISHLKDMMSKMMRTSQPQQQQSNIHMMQRVESARNRETEMTQQRHAQDWLQLQMEEERVRQERYKLAKPEP----------------------EEP-----------GENQTEPDETIRPTKADKRRTQKILLGKIKERITRENEQTNENETTIETKQTNGNPKLKRDIIEKSI--SNMEKEFETPPRGLIKVETKRNLRINMLRNIRDSLPEDGETSETSSLMGEALRVSENEEQNKQIIRPMNRWIWDRPPSPTEGEIKLIDELIETILETLINEEFINNE-----------------------EKPRVKAYLDKQKLEDITKFQ 1703

HSP 2 Score: 277.715 bits (709), Expect = 4.559e-79
Identity = 145/221 (65.61%), Postives = 162/221 (73.30%), Query Frame = 1 
Query:  121 LKSTNKDKLTTEKKLIKDNMADMENPNARQPVVGEQAKEYREKFRGEPFNGNASKLNTFIRNFGVYVEVCNWSPDMVKNRMPLYLCDSALDIFLEARERKKKLDTWNEIKEFLTTTFGVAKLTNQGMQELFSRKQRHGESNTMFASEIRRLAKTATEVKLAETHLIGIFVDGLRRPELRSVVGMQILATLDEAVAKANQAEIHLPTQIATMQDESMINAMT 783
            L+STNK+ +         N  D + P  + P  GE  +EYREKFRGEPFNGNA+KLNTFIRNFGV                       ALDIFLEA+ER K L+ W EI+EFL  TFGVAKLTNQG+QELF+RK+RHGESNTMFASEIRRLAKTAT+ KL E HLIGIFVDGLRRPELRS VGMQ+L TLDEAVA+ANQAEIHLP+QIA MQDESMI  M 
Sbjct: 1139 LESTNKNNMAENNG--NTNKNDGKEP-TKLPTTGEIVREYREKFRGEPFNGNANKLNTFIRNFGV-----------------------ALDIFLEAKERGKPLNNWKEIQEFLKLTFGVAKLTNQGIQELFNRKKRHGESNTMFASEIRRLAKTATDGKLDEAHLIGIFVDGLRRPELRSAVGMQMLTTLDEAVARANQAEIHLPSQIALMQDESMIATMA 1333
[Close]
BLAST of SMED30001215 vs. Planmine SMEST
Match: SMESG000019863.1 (SMESG000019863.1)

HSP 1 Score: 256.529 bits (654), Expect = 6.941e-72
Identity = 166/450 (36.89%), Postives = 244/450 (54.22%), Query Frame = 1 
Query:  166 IKDNMADMENPNARQPVVGEQAKEYREKFRGEPFNGNASKLNTFIRNFGVYVEVCNWSPDMVKNRMPLYLCDSALDIFLEARERKKKLDTWNEIKEFLTTTFGVAKLTNQGMQELFSRKQRHGESNTMFASEIRRLAKTA-TEVKLAETHLIGIFVDGLRRPELRSVVGMQILATLDEAVAKANQAEIHLPT--QIATMQDESMINAMTTKTQENEASSAKVNQFIPGAHQIFKXXXXXXXXXXXXXXXXXXXXXXXXXXXXYSQNKQCRTCGKPGHWESECFRNLTCTRFGKKGHTLNRC---EVRTCFTCGRQGHVAKDCXXXXXXXXXXXXXXXYVQVAPRQNVIEQGKQVNMMQEISQLKDM-------MSSMMRANQPNQRQQNIHMMQRVENTRNREVEVTRQRHVQ-----DWQQLQMEEERVKQERFRQRQDNPPRINMLRM 1461
            I  N     +PN           E+REKFRGEPF+G+ +KL+TFI+ F VY  +C+W+   VK R+PLYL  SA D+F+E      KL TW EIKEFL   FG+ K  N+ + +   RKQR  ESN ++A E+++L K A  E  L E  ++ +F+ G++R ++R+ +G     TLD+AVA AN+ E HL    Q+A +  E   + +    Q N  + A +NQFIP A Q+FKPP  R   ++ +   + N    +      + N+QC TC K GH    CFRN  C + G++GHT   C   + + C+ CG+QGH+A+ C      N          Q  P  N + +  Q+N+MQEI  L++        +  MM+    N +QQ I++M+      N E++  R R  Q     +WQ+LQ EE +  Q+R+  R+  P RINM+RM
Sbjct:    5 INPNTTSTPDPNLMINSNNTTVGEFREKFRGEPFDGSLNKLDTFIKEFEVYKNICHWTDQKVKERLPLYLKGSAQDVFVEEARDVTKLTTWTEIKEFLVKIFGIEKKGNRKILDFLHRKQRRDESNAVYACELKKLCKEAFGESDLPEDKMVDVFIRGIKREDIRANLGCLAPETLDKAVAIANRCEAHLGLGYQVAVLATEPTTSTVNANNQNNNINPA-MNQFIPRAQQMFKPPTTRNPEDKGNNQVSYNNNFRNKP----NANEQCSTCQKMGHRSENCFRNYNCQKCGRRGHTERICRQLDNKACYNCGQQGHIARRCNIRGEAN----------QPRPNNNPM-RNPQINVMQEIDMLRETLQRMPMELKEMMQQIPTNIQQQRINVMR-----SNEEIQELRTREYQEQQQAEWQRLQTEEAQEIQQRWENRKQTPKRINMMRM 433
[Close]
BLAST of SMED30001215 vs. Planmine SMEST
Match: SMESG000019863.1 (SMESG000019863.1)

HSP 1 Score: 256.529 bits (654), Expect = 8.231e-72
Identity = 166/450 (36.89%), Postives = 244/450 (54.22%), Query Frame = 1 
Query:  166 IKDNMADMENPNARQPVVGEQAKEYREKFRGEPFNGNASKLNTFIRNFGVYVEVCNWSPDMVKNRMPLYLCDSALDIFLEARERKKKLDTWNEIKEFLTTTFGVAKLTNQGMQELFSRKQRHGESNTMFASEIRRLAKTA-TEVKLAETHLIGIFVDGLRRPELRSVVGMQILATLDEAVAKANQAEIHLPT--QIATMQDESMINAMTTKTQENEASSAKVNQFIPGAHQIFKXXXXXXXXXXXXXXXXXXXXXXXXXXXXYSQNKQCRTCGKPGHWESECFRNLTCTRFGKKGHTLNRC---EVRTCFTCGRQGHVAKDCXXXXXXXXXXXXXXXYVQVAPRQNVIEQGKQVNMMQEISQLKDM-------MSSMMRANQPNQRQQNIHMMQRVENTRNREVEVTRQRHVQ-----DWQQLQMEEERVKQERFRQRQDNPPRINMLRM 1461
            I  N     +PN           E+REKFRGEPF+G+ +KL+TFI+ F VY  +C+W+   VK R+PLYL  SA D+F+E      KL TW EIKEFL   FG+ K  N+ + +   RKQR  ESN ++A E+++L K A  E  L E  ++ +F+ G++R ++R+ +G     TLD+AVA AN+ E HL    Q+A +  E   + +    Q N  + A +NQFIP A Q+FKPP  R   ++ +   + N    +      + N+QC TC K GH    CFRN  C + G++GHT   C   + + C+ CG+QGH+A+ C      N          Q  P  N + +  Q+N+MQEI  L++        +  MM+    N +QQ I++M+      N E++  R R  Q     +WQ+LQ EE +  Q+R+  R+  P RINM+RM
Sbjct:    5 INPNTTSTPDPNLMINSNNTTVGEFREKFRGEPFDGSLNKLDTFIKEFEVYKNICHWTDQKVKERLPLYLKGSAQDVFVEEARDVTKLTTWTEIKEFLVKIFGIEKKGNRKILDFLHRKQRRDESNAVYACELKKLCKEAFGESDLPEDKMVDVFIRGIKREDIRANLGCLAPETLDKAVAIANRCEAHLGLGYQVAVLATEPTTSTVNANNQNNNINPA-MNQFIPRAQQMFKPPTTRNPEDKGNNQVSYNNNFRNKP----NANEQCSTCQKMGHRSENCFRNYNCQKCGRRGHTERICRQLDNKACYNCGQQGHIARRCNIRGEAN----------QPRPNNNPM-RNPQINVMQEIDMLRETLQRMPMELKEMMQQIPTNIQQQRINVMR-----SNEEIQELRTREYQEQQQAEWQRLQTEEAQEIQQRWENRKQTPKRINMMRM 433
[Close]
BLAST of SMED30001215 vs. Planmine SMEST
Match: SMESG000019863.1 (SMESG000019863.1)

HSP 1 Score: 256.529 bits (654), Expect = 8.884e-72
Identity = 166/450 (36.89%), Postives = 244/450 (54.22%), Query Frame = 1 
Query:  166 IKDNMADMENPNARQPVVGEQAKEYREKFRGEPFNGNASKLNTFIRNFGVYVEVCNWSPDMVKNRMPLYLCDSALDIFLEARERKKKLDTWNEIKEFLTTTFGVAKLTNQGMQELFSRKQRHGESNTMFASEIRRLAKTA-TEVKLAETHLIGIFVDGLRRPELRSVVGMQILATLDEAVAKANQAEIHLPT--QIATMQDESMINAMTTKTQENEASSAKVNQFIPGAHQIFKXXXXXXXXXXXXXXXXXXXXXXXXXXXXYSQNKQCRTCGKPGHWESECFRNLTCTRFGKKGHTLNRC---EVRTCFTCGRQGHVAKDCXXXXXXXXXXXXXXXYVQVAPRQNVIEQGKQVNMMQEISQLKDM-------MSSMMRANQPNQRQQNIHMMQRVENTRNREVEVTRQRHVQ-----DWQQLQMEEERVKQERFRQRQDNPPRINMLRM 1461
            I  N     +PN           E+REKFRGEPF+G+ +KL+TFI+ F VY  +C+W+   VK R+PLYL  SA D+F+E      KL TW EIKEFL   FG+ K  N+ + +   RKQR  ESN ++A E+++L K A  E  L E  ++ +F+ G++R ++R+ +G     TLD+AVA AN+ E HL    Q+A +  E   + +    Q N  + A +NQFIP A Q+FKPP  R   ++ +   + N    +      + N+QC TC K GH    CFRN  C + G++GHT   C   + + C+ CG+QGH+A+ C      N          Q  P  N + +  Q+N+MQEI  L++        +  MM+    N +QQ I++M+      N E++  R R  Q     +WQ+LQ EE +  Q+R+  R+  P RINM+RM
Sbjct:    5 INPNTTSTPDPNLMINSNNTTVGEFREKFRGEPFDGSLNKLDTFIKEFEVYKNICHWTDQKVKERLPLYLKGSAQDVFVEEARDVTKLTTWTEIKEFLVKIFGIEKKGNRKILDFLHRKQRRDESNAVYACELKKLCKEAFGESDLPEDKMVDVFIRGIKREDIRANLGCLAPETLDKAVAIANRCEAHLGLGYQVAVLATEPTTSTVNANNQNNNINPA-MNQFIPRAQQMFKPPTTRNPEDKGNNQVSYNNNFRNKP----NANEQCSTCQKMGHRSENCFRNYNCQKCGRRGHTERICRQLDNKACYNCGQQGHIARRCNIRGEAN----------QPRPNNNPM-RNPQINVMQEIDMLRETLQRMPMELKEMMQQIPTNIQQQRINVMR-----SNEEIQELRTREYQEQQQAEWQRLQTEEAQEIQQRWENRKQTPKRINMMRM 433
The following BLAST results are available for this feature:
BLAST of SMED30001215 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30001215 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30001215 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30001215 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
cnbpa4.356e-632.84CCHC-type zinc finger, nucleic acid binding protei... [more]
back to top
BLAST of SMED30001215 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30001215 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30001215 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30001215 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 2
Match NameE-valueIdentityDescription
A0A2F0BA383.742e-642.86Cellular nucleic acid-binding protein (Fragment) O... [more]
A0A1E5S1043.764e-640.00Zinc finger protein GIS2 OS=Hanseniaspora uvarum O... [more]
back to top
BLAST of SMED30001215 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30001215 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 2
Match NameE-valueIdentityDescription
ENSPMAT00000003739.17.521e-741.67pep scaffold:Pmarinus_7.0:GL499243:411:1384:-1 gen... [more]
ENSPMAT00000010393.15.741e-635.82pep scaffold:Pmarinus_7.0:GL485791:8073:10868:-1 g... [more]
back to top
BLAST of SMED30001215 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30001215 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30001215 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
cnbpa8.861e-632.00CCHC-type zinc finger nucleic acid binding protein... [more]
back to top
BLAST of SMED30001215 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000038549.12.500e-12469.41SMESG000038549.1[more]
SMESG000009033.13.653e-9256.16SMESG000009033.1[more]
SMESG000019863.16.941e-7236.89SMESG000019863.1[more]
SMESG000019863.18.231e-7236.89SMESG000019863.1[more]
SMESG000019863.18.884e-7236.89SMESG000019863.1[more]
back to top
Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30001215 ID=SMED30001215|Name=SMED30001215|organism=Schmidtea mediterranea sexual|type=transcript|length=2206bp
TCGAAACCGACAGTCAAGGATCAACTACTAAAGAAAACCGAGAAAAGAGG
AAATCAATAACCCAAAAACAATACACCTGTGGAATCAGAAGACGAAAGTA
TAAATCAACAAGGAGACGTTCTCAAATCAACCAACAAAGACAAATTAACT
ACAGAAAAGAAACTAATAAAAGACAACATGGCAGACATGGAAAACCCCAA
TGCAAGACAACCAGTGGTAGGCGAACAAGCCAAAGAATACCGAGAAAAGT
TTCGCGGAGAACCGTTTAACGGAAATGCCAGCAAACTAAATACGTTCATA
AGAAATTTCGGAGTATATGTCGAAGTATGTAATTGGTCGCCAGACATGGT
GAAAAATCGAATGCCACTATATTTGTGCGATAGTGCGCTAGATATCTTCT
TAGAAGCTAGAGAGAGGAAAAAGAAGTTGGATACCTGGAACGAGATCAAA
GAATTTTTAACAACGACATTCGGAGTCGCAAAATTAACGAATCAAGGAAT
GCAAGAGCTGTTTAGTAGAAAACAGAGACATGGCGAATCAAATACAATGT
TTGCAAGCGAAATAAGACGCTTGGCAAAAACGGCCACAGAAGTAAAGCTG
GCAGAAACTCATCTAATAGGAATATTCGTGGATGGACTAAGACGACCAGA
ATTGAGATCAGTAGTAGGTATGCAAATATTGGCAACCTTAGATGAAGCAG
TAGCAAAAGCAAACCAAGCAGAAATACATCTACCTACCCAAATTGCAACA
ATGCAAGACGAATCAATGATCAATGCAATGACAACTAAAACCCAGGAAAA
TGAAGCAAGTAGTGCAAAAGTAAACCAATTCATACCAGGCGCGCACCAGA
TATTCAAACCTCCAATACCACGAACAAACAATAATCGCCCAGATACGAAC
TACAACAACAACCAGCGACCAAATCACAACAACGCTAATAATTATAGCCA
GAATAAACAATGTCGAACCTGCGGGAAACCAGGGCACTGGGAAAGCGAGT
GCTTTCGGAACCTAACATGTACAAGATTCGGGAAAAAAGGGCATACTTTA
AATCGATGTGAGGTCAGAACTTGCTTCACATGTGGAAGGCAGGGACATGT
GGCGAAAGATTGTAGAGGAGGAAACAATCAAAATCAAGGCCCACCAAGGA
ATAATAACTATGTGCAAGTGGCACCGAGACAAAATGTTATCGAACAAGGA
AAGCAAGTTAATATGATGCAAGAAATTTCACAACTAAAAGACATGATGTC
AAGTATGATGAGAGCGAACCAGCCAAACCAACGACAGCAGAATATTCACA
TGATGCAGAGAGTAGAAAATACGCGAAACCGAGAAGTAGAAGTGACACGT
CAACGACATGTACAAGATTGGCAACAATTGCAGATGGAGGAAGAAAGAGT
AAAACAAGAAAGGTTCCGGCAGCGACAAGACAATCCACCTAGAATCAACA
TGCTGAGAATGATAAAAGACGTTAAAGAACAATACTGTTATAATATACAT
AAAAAGTCGCCATAAGACCAGCTAACCGAAACCAAAGAGGAAAAACAAGA
GGAACAAACCAAACCCGATAAAATAATTAATCCAACACCATCAGACAAAC
GCAGAATACAGAAGATATTTTTAAAGAAAGTCAAAGAGAGAATAACGAGA
GAAAACGAAGAAAGATTGAGGAATAATGAAAACCAAGAAGTAAAACCGGC
CAGTGAAAAGCGAGAATTGAAACAAGATAACAATAAACCGACAATCAATG
AAGCAAAATCAGAATCAGAATCAGAAACACCAACAAGGGGATTGATGAAA
AGTAAAACCATACAAAATTTTCGGATAAATATGCTGAGACATATCAATGA
TTCGGTATCAGAAGATGGAGATTCCAGTGAAACTAGTAGTTTGATGGGAG
AAGCATTACGGGTATCTGAAAATGAAGAGCAAAACAAACCGATTATACGA
CCAATAAGTAAATGGATCTATGATCGACCCCCGTCACCAACAGAAAGAGA
AACGGAATTGATAGACAAATTAATCGAAACTATACCCGAAACACTGATAA
ACGAAGAATTTATCAACAACGAAGTGTTCAAGAGATACCTGAAAAATATC
CTACAACTTGAAGGGACAAGAGGAGATGTAATACCTGAGCAGGAAAAATT
ACGAATAAAAGAATATCTTGACAAACAAAAATTAGAGGATATCACAAAAT
TCCAAA
back to top

protein sequence of SMED30001215-orf-1

>SMED30001215-orf-1 ID=SMED30001215-orf-1|Name=SMED30001215-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=137bp
MKSKTIQNFRINMLRHINDSVSEDGDSSETSSLMGEALRVSENEEQNKPI
IRPISKWIYDRPPSPTERETELIDKLIETIPETLINEEFINNEVFKRYLK
NILQLEGTRGDVIPEQEKLRIKEYLDKQKLEDITKFQ
back to top

protein sequence of SMED30001215-orf-2

>SMED30001215-orf-2 ID=SMED30001215-orf-2|Name=SMED30001215-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=446bp
MADMENPNARQPVVGEQAKEYREKFRGEPFNGNASKLNTFIRNFGVYVEV
CNWSPDMVKNRMPLYLCDSALDIFLEARERKKKLDTWNEIKEFLTTTFGV
AKLTNQGMQELFSRKQRHGESNTMFASEIRRLAKTATEVKLAETHLIGIF
VDGLRRPELRSVVGMQILATLDEAVAKANQAEIHLPTQIATMQDESMINA
MTTKTQENEASSAKVNQFIPGAHQIFKPPIPRTNNNRPDTNYNNNQRPNH
NNANNYSQNKQCRTCGKPGHWESECFRNLTCTRFGKKGHTLNRCEVRTCF
TCGRQGHVAKDCRGGNNQNQGPPRNNNYVQVAPRQNVIEQGKQVNMMQEI
SQLKDMMSSMMRANQPNQRQQNIHMMQRVENTRNREVEVTRQRHVQDWQQ
LQMEEERVKQERFRQRQDNPPRINMLRMIKDVKEQYCYNIHKKSP*
back to top
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001878Znf_CCHC
IPR005162Retrotrans_gag_dom
Vocabulary: molecular function
TermDefinition
GO:0003676nucleic acid binding
GO:0008270zinc ion binding