DDE_Tnp_IS1595 domain-containing protein

Overview
NameDDE_Tnp_IS1595 domain-containing protein
Smed IDSMED30026795
Length (bp)791
Neoblast Clusters

Zeng et. al., 2018



▻ Overview

▻ Neoblast 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 DDE_Tnp_IS1595 domain-containing protein (SMED30026795) t-SNE clustered cells

Violin plots show distribution of expression levels for DDE_Tnp_IS1595 domain-containing protein (SMED30026795) in cells (dots) of each of the 12 neoblast clusters.

 

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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

 

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Anatomical Expression

PAGE et. al., 2020



SMED30026795

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



PAGE Curations: 1

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X2 cellSMED30026795 SmedASXL_071834SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Match: A0A059F424 (DDE_Tnp_IS1595 domain-containing protein OS=Anncaliia algerae PRA339 OX=1288291 GN=H312_00756 PE=4 SV=1)

HSP 1 Score: 105.145 bits (261), Expect = 4.061e-38
Identity = 61/170 (35.88%), Postives = 89/170 (52.35%), Query Frame = 1 
Query:   79 HREIFSATSDDRAAVEWLIFKCYIHGNITCENCIHRIMVIEQKRKNLRRGCIICNKRLSIIRNTILFNSNISLAKLIVLIYFRTLNITQNYTLSEID-----------------------------IEGVGCFFEVDESKFSKSKFNVGRLFRSLWVIGGIEITSCEIFF 501
            HR++   T +  + +EWL+   YI     C +C  + M +E  +   R  C  C +  SI +NTIL N  ISL+ +I LIYF ++++TQN +  E D                             I G+G   EVDESKFSK K+N+GRL RS W++GG++I + E+FF
Sbjct:    3 HRDLVMLTKNYESTIEWLMTNNYIPSYALCSSCDDKEMKLENNKNIKRWRCSKCGQVSSIFKNTILENLKISLSNIIDLIYFWSIDLTQNKSAFETDNICRDTVSKWYHKLSLQTFFIMKETQANKIGGIGHIVEVDESKFSKRKYNIGRLNRSPWIVGGVDIHTGEMFF 172

HSP 2 Score: 82.0333 bits (201), Expect = 4.061e-38
Identity = 48/101 (47.52%), Postives = 61/101 (60.40%), Query Frame = 2 
Query:  497 FFRDVTFRSRTTIGSVLLKFVELGTTSITDCWRGYRN--------LTVNHSLNVVDPISQA--------------KFRS*FFTSRSNLSLMFAEFMFKLKF 733
            FF +V  R++ T+ ++LL+ V LGTT +TDCW GY N        LTVNHS N VDP + A              K RS F TS+S+ SL+F+EFMFKLKF
Sbjct:  171 FFVEVINRNQHTLRNILLEKVHLGTTIVTDCWNGYLNLESLGYIHLTVNHSENFVDPTTGANTQVIENRWSIFKRKIRSRFITSKSDFSLIFSEFMFKLKF 271
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Match: A0A059EZQ7 (Uncharacterized protein OS=Anncaliia algerae PRA339 OX=1288291 GN=H312_02374 PE=4 SV=1)

HSP 1 Score: 121.709 bits (304), Expect = 1.376e-30
Identity = 79/172 (45.93%), Postives = 95/172 (55.23%), Query Frame = 1 
Query:   70 MAAHREIFSATSDDRAAVEWLIFKCYIHGNITCENCIHRIMVIEQKRKNLRRGCIICNKRLSIIRNTILFNSNISLAKLIVLIYFRTLNITQNYTLSEID-----------------------------IEGVGCFFEVDESKFSKSKFNVGRLFRSLWVIGGIEITSCEIF 498
            M  HREI  AT + ++A+E+L    YI     C+ C    M IE      R  C  CNKR S++ NTILFNSN+ L  LI LIYF +LN+TQNYTL+EI                              I GVGC  EVDESKFSK KFNVGR+ RS WVIGG++I + E F
Sbjct:    1 MTTHREIVKATLNYKSAIEYLQGNNYIPQKFWCQTCSQN-MKIEMNNNIFRWRCSKCNKRKSLLSNTILFNSNLDLPLLIDLIYFWSLNLTQNYTLNEISSKSRDTITRWYHTLSLQSFFIMRNLSRVKIGGVGCTIEVDESKFSKRKFNVGRVVRSPWVIGGVDIFTGEFF 171
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Match: A0A059EZP7 (DDE_Tnp_IS1595 domain-containing protein OS=Anncaliia algerae PRA339 OX=1288291 GN=H312_02394 PE=4 SV=1)

HSP 1 Score: 93.9745 bits (232), Expect = 7.944e-28
Identity = 55/171 (32.16%), Postives = 86/171 (50.29%), Query Frame = 1 
Query:   76 AHREIFSATSDDRAAVEWLIFKCYIHGNITCENCIHRIMVIEQKRKNLRRGCIICNKRLSIIRNTILFNSNISLAKLIVLIYFRTLNITQNYTLSEID-----------------------------IEGVGCFFEVDESKFSKSKFNVGRLFRSLWVIGGIEITSCEIFF 501
            +HRE+   T+   + ++WL     I  + +C  C ++ M + Q +   R  C  C+  +SI   T+ FNSNI + +L+ LIYF + + +      EI+                             I GVG   E+DESKF+K K+NVGR+ RS WV+GGI++++ E FF
Sbjct:    4 SHRELVLKTNTILSTIQWLQELEIIPLSKSCSKCAYQKMRLTQYKNTFRWKCTRCSSAISIFEGTLFFNSNIKINRLVDLIYFWSQDYSHAKVKKEIECNSQTTVCEWFKKLQKLSYVILRGESRSLIGGVGHIVEIDESKFTKRKYNVGRVPRSPWVVGGIDVSTKECFF 174

HSP 2 Score: 59.3066 bits (142), Expect = 7.944e-28
Identity = 39/101 (38.61%), Postives = 54/101 (53.47%), Query Frame = 2 
Query:  497 FFRDVTFRSRTTIGSVLLKFVELGTTSITDCWRGYRNL--------TVNHSLNVVDPISQA--------------KFRS*FFTSRSNLSLMFAEFMFKLKF 733
            FF +V  R+  T+ +++L+ V  GTT ITD WRGY  L        TVNHSLN V P++ A              K R+       +L+LMFAEF+FK ++
Sbjct:  173 FFVEVFHRTSETLKAIILENVLPGTTIITDEWRGYWGLEGLGYFHATVNHSLNFVCPLTGANTQLIENTWGWIKKKIRARGLRCTGDLTLMFAEFIFKKRY 273
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Match: A0A059F4Q1 (DDE_Tnp_IS1595 domain-containing protein OS=Anncaliia algerae PRA339 OX=1288291 GN=H312_00524 PE=4 SV=1)

HSP 1 Score: 91.2781 bits (225), Expect = 4.276e-27
Identity = 54/175 (30.86%), Postives = 85/175 (48.57%), Query Frame = 1 
Query:   79 HREIFSATSDDRAAVEWLIFKCYIHGNITCENCIHRIMVIEQKRKNLRRGCIICNKRLSIIRNTILFNSNISLAKLIVLIYFRTLNITQ-----------NYTLS-------------------EIDIEGVGCFFEVDESKFSKSKFNVGRLFRSLWVIGGIEITSCEIFFSGCY 513
            HRE+   T +   A+EW++ K Y+  +I C  CI + M +  K+      C  CN   SI   TI +N    + +L+ LIYF +L++ Q           N T++                      I G+    ++DESKFSK K+N+GR   S W++GGI++T+ ++FF   Y
Sbjct:    3 HRELIKLTLNVTTAIEWMLEKGYLKNSIPCTKCIDKQMKVRFKKGQHIFKCTKCNTTKSIFYKTIFYNCKKDILELLDLIYFWSLDLNQKKVSYQTNTKSNETMTGWYKKLCFLSGRIIRKEKNNKKIGGINHIIQIDESKFSKRKYNIGRHVHSPWIVGGIDLTTKDVFFVEVY 177

HSP 2 Score: 59.3066 bits (142), Expect = 4.276e-27
Identity = 37/101 (36.63%), Postives = 53/101 (52.48%), Query Frame = 2 
Query:  497 FFRDVTFRSRTTIGSVLLKFVELGTTSITDCWRGYRNLT--------VNHSLNVVDPISQAK--------------FRS*FFTSRSNLSLMFAEFMFKLKF 733
            FF +V  R  TT+ +++L+ VELG+T  TD W+GY NL+        VNHS N +DPI+ A               F++    S   +S +F EFM K K+
Sbjct:  172 FFVEVYKRDSTTLKNIILENVELGSTIFTDKWKGYANLSDLGYNHADVNHSTNFIDPITGANTQAIESTWNSYKKLFKARSINSSCYISDLFYEFMLKKKY 272
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Match: A0A059F1F4 (DDE_Tnp_IS1595 domain-containing protein OS=Anncaliia algerae PRA339 OX=1288291 GN=H312_01514 PE=4 SV=1)

HSP 1 Score: 92.0485 bits (227), Expect = 4.527e-27
Identity = 53/171 (30.99%), Postives = 86/171 (50.29%), Query Frame = 1 
Query:   76 AHREIFSATSDDRAAVEWLIFKCYIHGNITCENCIHRIMVIEQKRKNLRRGCIICNKRLSIIRNTILFNSNISLAKLIVLIYFRTLNITQNYTLSEID-----------------------------IEGVGCFFEVDESKFSKSKFNVGRLFRSLWVIGGIEITSCEIFF 501
             HR++ + TS   + ++WL     +  + TC NC+++++ +   +K  R  C  C+   SI  NTI FN+ + + +L+ L+YF +++  Q     EI+                             I G G   E+DES FSK K+NVGR+ RS WV+GGI++ + E FF
Sbjct:    4 THRQLVNKTSTLLSTIQWLQEIKILPESKTCINCVNQLLRLVSYKKTYRWKCTKCSSACSIFENTIFFNTKLEITRLLDLVYFWSMDQNQTKVKHEIECNAQKTVCDWFKKLQKLSYIVMRDESSSKIGGTGHIVEIDESLFSKRKYNVGRVPRSPWVVGGIDLETKECFF 174

HSP 2 Score: 58.151 bits (139), Expect = 4.527e-27
Identity = 36/107 (33.64%), Postives = 57/107 (53.27%), Query Frame = 2 
Query:  479 LPAVKYFFRDVTFRSRTTIGSVLLKFVELGTTSITDCWR--------GYRNLTVNHSLNVVDPISQA--------------KFRS*FFTSRSNLSLMFAEFMFKLKF 733
            L   + FF +VT R+  T+  ++L+ VE G+  ITD WR        GY ++TVNHS N + P++ A              K R+    +  +L+L+FAEF+FK ++
Sbjct:  167 LETKECFFVEVTHRNADTLKYIILEKVEPGSLIITDEWRGYWGLEELGYHHITVNHSENFICPLTGANTQLIENTWGWMKRKIRARGLKNNGDLTLIFAEFLFKKRY 273
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Planmine SMEST
Match: SMESG000079181.1 (SMESG000079181.1)

HSP 1 Score: 35.039 bits (79), Expect = 3.133e-6
Identity = 28/96 (29.17%), Postives = 44/96 (45.83%), Query Frame = 2 
Query:  518 RSRTTIGSVLLKFVELGTTSITDCWRGYRNLT--------VNHSLNVVDPISQA------------KFRS--*FFTSRSNLSLMFAEFMFKLKFLK 739
            R+R T+  ++ KF+  G+   +D W  Y +LT        VN   N VDPIS A            K R+   + T+R+       EF+++ +F K
Sbjct:   66 RNRETLQCMIRKFIRPGSIIHSDFWAAYGDLTVLGYFHFKVNLEENYVDPISGATTNHQESRCQKVKMRNIMRYGTARTTFGSHLIEFLWRQRFGK 161

HSP 2 Score: 33.8834 bits (76), Expect = 3.133e-6
Identity = 13/34 (38.24%), Postives = 20/34 (58.82%), Query Frame = 1 
Query:  379 VGCFFEVDESKFSKSKFNVGRLFRSLWVIGGIEI 480
            +G   E+DES+  + K+  G L R  WV  G+E+
Sbjct:   20 LGILVEIDESQLVRRKYERGHLVREQWVFDGVEV 53
The following BLAST results are available for this feature:
BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A059F4244.061e-3835.88DDE_Tnp_IS1595 domain-containing protein OS=Anncal... [more]
A0A059EZQ71.376e-3045.93Uncharacterized protein OS=Anncaliia algerae PRA33... [more]
A0A059EZP77.944e-2832.16DDE_Tnp_IS1595 domain-containing protein OS=Anncal... [more]
A0A059F4Q14.276e-2730.86DDE_Tnp_IS1595 domain-containing protein OS=Anncal... [more]
A0A059F1F44.527e-2730.99DDE_Tnp_IS1595 domain-containing protein OS=Anncal... [more]
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000079181.13.133e-629.17SMESG000079181.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30026795 ID=SMED30026795|Name=DDE_Tnp_IS1595 domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=791bp
TGTTTGATTGATTACTAAACTAATGCGTTTTATAATCAATTTATATAAAG
ATTTTTCATTTTTTTATTTATGGCTGCACACAGAGAAATTTTTTCAGCTA
CAAGTGATGACAGAGCTGCAGTTGAATGGCTGATTTTTAAGTGCTATATT
CATGGAAATATAACTTGTGAGAATTGCATTCACAGAATTATGGTGATTGA
ACAGAAAAGAAAAAACCTTCGCCGGGGCTGTATTATATGCAACAAACGCT
TATCAATAATCAGAAATACTATTTTATTCAATTCAAATATATCACTAGCA
AAATTAATAGTTTTGATATATTTCAGGACACTAAATATAACGCAAAATTA
TACGCTTTCAGAAATTGATATTGAGGGAGTTGGATGTTTTTTCGAAGTAG
ATGAATCAAAATTTTCGAAAAGTAAATTCAACGTTGGCAGGTTGTTTCGT
TCGCTGTGGGTTATTGGAGGCATCGAAATTACCAGCTGTGAAATATTTTT
TTCGGGATGTTACATTCAGAAGCAGAACAACCATTGGTAGTGTCTTGTTG
AAATTTGTTGAACTCGGTACAACAAGCATAACAGATTGTTGGCGAGGTTA
CAGAAATTTAACTGTAAACCATAGTCTCAATGTCGTGGATCCAATTTCAC
AAGCCAAATTCAGATCGTGATTTTTTACAAGTAGAAGTAATTTAAGTTTA
ATGTTTGCAGAATTTATGTTTAAATTGAAATTTTTAAAAATTTATAAAAG
AAAGCTTTGATATTATGATGTATAGTCTGAATGAGTTTAAT
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protein sequence of SMED30026795-orf-1

>SMED30026795-orf-1 ID=SMED30026795-orf-1|Name=SMED30026795-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=157bp
MAAHREIFSATSDDRAAVEWLIFKCYIHGNITCENCIHRIMVIEQKRKNL
RRGCIICNKRLSIIRNTILFNSNISLAKLIVLIYFRTLNITQNYTLSEID
IEGVGCFFEVDESKFSKSKFNVGRLFRSLWVIGGIEITSCEIFFSGCYIQ
KQNNHW*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: molecular function
TermDefinition
GO:0003743translation initiation factor activity
Vocabulary: biological process
TermDefinition
GO:0006413translational initiation
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0002111X2 cell