Transposase, Tc1-like protein

Overview
NameTransposase, Tc1-like protein
Smed IDSMED30018809
Length (bp)1208
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 Transposase, Tc1-like protein (SMED30018809) t-SNE clustered cells

Violin plots show distribution of expression levels for Transposase, Tc1-like protein (SMED30018809) in cells (dots) of each of the 12 neoblast clusters.

 

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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 Transposase, Tc1-like protein (SMED30018809) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Transposase, Tc1-like protein (SMED30018809) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

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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.
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

 

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Anatomical Expression

PAGE et. al., 2020



SMED30018809

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
Category 3 cellSMED30018809SMESG000068262.1 SMESG000053435.1 SMESG000049288.1 dd_Smed_v6_6797_0dd_Smed_v6PMID:29674432
Plass 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 Transposase, Tc1-like protein vs. TrEMBL
Match: K7LU34 (Uncharacterized protein OS=Glycine max OX=3847 GN=100786509 PE=4 SV=1)

HSP 1 Score: 169.474 bits (428), Expect = 3.956e-56
Identity = 97/214 (45.33%), Postives = 122/214 (57.01%), Query Frame = 1 
Query:  589 LHHRIKAGEVGVCMATLKTLLTDANKEKRIMIVFRHLQFFEDGSIRLLYMVDMVHIDENWFYLTEEQSRYYLETD*VEPHCQVKLKRFIIKVMFLAAVARSRFDAHKNEWFNGKIGIWPFVKMEPAKRNSKNHNRGIFLFTPIVVDNR-------IEKVLTAIKSKWPGNRI-KRFFIQQDNARPHISLDDSEFVQHATTDEFDFPLTYQPPNS 1206
            ++  I++G +    + +K  LT+  K  R+      L+      +    M +++HIDE WFY+T++  RYYL  D  +PH   K K F+ KVMFL AVAR RFD+ KN  F+GKIGI+PFV  EPAKR S N   G      I   NR       IEKVL A K  WP + +    FIQQDNAR HI+ DD EFVQ AT D FD  L  QPPNS
Sbjct:  190 MYRLIQSGAIKRHSSAIKPQLTEEGKRLRLEFCLSMLEGIPHDPM-FQSMYNIIHIDEKWFYMTKKSERYYLLPDEDKPHRSCKSKNFVPKVMFLTAVARPRFDSEKNVTFSGKIGIFPFVTQEPAKRTSVNRVAGTMETKAITSINRDLIRSVFIEKVLPATKEVWPRDELGSTIFIQQDNARTHINPDDPEFVQAATQDGFDIRLMCQPPNS 402

HSP 2 Score: 79.337 bits (194), Expect = 3.956e-56
Identity = 44/111 (39.64%), Postives = 71/111 (63.96%), Query Frame = 3 
Query:  261 INMERNKRELSNEQRRLIYEDLLSENDNGILKRGAYNSIATKYHVSIQTVAKIWKRGKEISPSNVASKKRSQVGEKKTNFELNGKIRNVPLNKRKTIRSLAGALKMTKTSA 593
            + M+R  + LSNE+R  IY+ LL ++ +G L +G   S+A+ + V  +T+ +IWKR KE    +V+ KK    G K+   +L  ++R +PL++R T+R+LA A+K T TSA
Sbjct:   81 LQMQRKVKMLSNEERITIYQLLLQKSVDGKLPQGVKESVASSFSVCRKTIDRIWKRAKESETHDVSHKKTKNSGRKRVEIDL-SQLREIPLSQRTTVRTLAVAMK-TNTSA 189
[Close]
BLAST of Transposase, Tc1-like protein vs. TrEMBL
Match: O81532 (Mariner transposase OS=Glycine max OX=3847 PE=4 SV=1)

HSP 1 Score: 166.007 bits (419), Expect = 6.210e-55
Identity = 96/214 (44.86%), Postives = 121/214 (56.54%), Query Frame = 1 
Query:  589 LHHRIKAGEVGVCMATLKTLLTDANKEKRIMIVFRHLQFFEDGSIRLLYMVDMVHIDENWFYLTEEQSRYYLETD*VEPHCQVKLKRFIIKVMFLAAVARSRFDAHKNEWFNGKIGIWPFVKMEPAKRNSKNHNRGIFLFTPIVVDNR-------IEKVLTAIKSKWPGNRI-KRFFIQQDNARPHISLDDSEFVQHATTDEFDFPLTYQPPNS 1206
            ++  I++G +    + +K  LT+  K  R+      L+      +    M +++HIDE WFY+T++  RYYL  D  +PH   K K F+ KVMFL AVAR RFD+ KN  F+GKIGI+ FV  EPAKR S N   G      I   NR       IEKVL A K  WP + +    FIQQDNAR HI+ DD EFVQ AT D FD  L  QPPNS
Sbjct:  108 MYRLIQSGAIKRHSSAIKPQLTEEGKRLRLEFCLSMLEGIPHDPM-FQSMYNIIHIDEKWFYMTKKSERYYLLPDEDKPHRSCKSKNFVPKVMFLTAVARPRFDSEKNVTFSGKIGIFLFVTQEPAKRTSVNRVAGTMETKAITSINRDLIRSVFIEKVLPATKEVWPRDELGSTIFIQQDNARTHINPDDPEFVQAATQDGFDIRLMCQPPNS 320

HSP 2 Score: 78.9518 bits (193), Expect = 6.210e-55
Identity = 44/109 (40.37%), Postives = 71/109 (65.14%), Query Frame = 3 
Query:  267 MERNKRELSNEQRRLIYEDLLSENDNGILKRGAYNSIATKYHVSIQTVAKIWKRGKEISPSNVASKKRSQVGEKKTNFELNGKIRNVPLNKRKTIRSLAGALKMTKTSA 593
            M+R  + LSNE+R  IY+ LL ++ +G L +G   S+A+ + V  +T+ +IWKR KE    +V+ KK    G K+   +L+ ++R +PL++R T+R+LA A+K T TSA
Sbjct:    1 MQRKVKMLSNEERITIYQLLLQKSVDGKLPQGVKESVASSFSVCRKTIDRIWKRAKESETHDVSHKKTKNSGRKRVEIDLS-QLREIPLSQRTTVRTLAVAMK-TNTSA 107
[Close]
BLAST of Transposase, Tc1-like protein vs. TrEMBL
Match: A0A1R3KIH7 (Transposase, Tc1-like protein OS=Corchorus olitorius OX=93759 GN=COLO4_07828 PE=4 SV=1)

HSP 1 Score: 182.57 bits (462), Expect = 1.965e-54
Identity = 101/214 (47.20%), Postives = 130/214 (60.75%), Query Frame = 1 
Query:  589 LHHRIKAGEVGVCMATLKTLLTDANKEKRIMIVFRHLQFFEDG--SIRLLYMVDMVHIDENWFYLTEEQSRYYLETD*VEPHCQVKLKRFIIKVMFLAAVARSRFDAHKNEWFNGKIGIWPFVKMEPAKRNSKNHNRGIFLFTPIVVDN------RIEKVLTAIKSKWPGNRIKRFFIQQDNARPHISLDDSEFVQHATTDEFDFPLTYQPPNS 1206
            +H R+K G +      +K  LTD NK+ R+      L     G  +I    M + VHIDE WF++T E  RYYL  +  EP    K KRFI KVMFLAAVAR RFD   N  F+GKIGI+PFV  EPAKR SKN   G     P++V         IEK+L AIKSKWP ++++  +IQQDNA+PHI+  D EF++ A++D FD  ++ QPPNS
Sbjct:  122 IHRRVKEGFIRAHSNAVKPDLTDENKKTRLEFCLSKLDLTNAGINTIPFDGMFNQVHIDEKWFFMTRESERYYLLPEEDEPVRTCKSKRFITKVMFLAAVARPRFDESGNVKFSGKIGIFPFVHKEPAKRKSKNRIAGTMETKPMLVTKDVTRAYMIEKILPAIKSKWP-DKMETVYIQQDNAKPHINPKDVEFLKAASSDGFDIQISCQPPNS 334

HSP 2 Score: 60.8474 bits (146), Expect = 1.965e-54
Identity = 31/77 (40.26%), Postives = 50/77 (64.94%), Query Frame = 3 
Query:  273 RNKRELSNEQRRLIYEDLLSENDNGILKRGAYNSIATKYHVSIQTVAKIWKRGKEISPS----NVASKKRSQVGEKK 491
            ++ R L+N+QR+ IYE LL ++ +G+L +G+  S+AT + VS +T+ +IWK+ K    +    NV+SK    VG KK
Sbjct:   13 KHSRNLTNQQRQTIYEMLLKQSKDGVLSKGSLTSLATMFSVSPKTIGRIWKQAKLCMENGLVVNVSSKLTGNVGRKK 89
[Close]
BLAST of Transposase, Tc1-like protein vs. TrEMBL
Match: A0A1R3HQ96 (Transposase, Tc1-like protein OS=Corchorus olitorius OX=93759 GN=COLO4_27567 PE=4 SV=1)

HSP 1 Score: 160.614 bits (405), Expect = 7.812e-53
Identity = 93/197 (47.21%), Postives = 116/197 (58.88%), Query Frame = 1 
Query:  589 LHHRIKAGEVGVCMATLKTLLTDANKEKRIMIVFRHLQFFEDG--SIRLLYMVDMVHIDENWFYLTEEQSRYYLETD*VEPHCQVKLKRFIIKVMFLAAVARSRFDAHKNEWFNGKIGIWPFVKMEPAKRNSKNHNRGIFLFTPIVVDN------RIEKVLTAIKSKWPGNRIKRFFIQQDNARPHISLDDSEFVQH 1155
            +H R+K G +      +K  LTD NK+ R+      L     G  +I    M + VHIDE WF++T E  RYYL  +  EP    K KRFI KVMFLAAVAR RFD   N  F+GKIGI+PFV  EPAKR SKN   G     P++V         IEK+L AIKSKWP ++++  +IQQDNA+PHI+  D E  QH
Sbjct:  122 VHRRVKEGFIRAHSNAVKPDLTDENKKTRLEFCLSKLDLTNAGINTIPFDGMFNQVHIDEKWFFMTRESERYYLLPEEDEPVRTCKSKRFITKVMFLAAVARPRFDESGNVKFSGKIGIFPFVHKEPAKRKSKNRIAGTMETKPMLVTKDVTRAYMIEKILPAIKSKWP-DKMETVYIQQDNAKPHINPKDVEGHQH 317

HSP 2 Score: 77.0258 bits (188), Expect = 7.812e-53
Identity = 43/111 (38.74%), Postives = 70/111 (63.06%), Query Frame = 3 
Query:  273 RNKRELSNEQRRLIYEDLLSENDNGILKRGAYNSIATKYHVSIQTVAKIWKRGKEISPS----NVASKKRSQVGEKKTNFELNGKIRNVPLNKRKTIRSLAGALKMTKTSA 593
            ++ R L+N+QR+ IYE LL ++ +G+L +G+  S+AT + VS +T+ +IWK+ K    +    NV+SK    VG KK   +   K+  +PL +R  IRS+A AL M+K++ 
Sbjct:   13 KHSRNLTNQQRQTIYEMLLKQSKDGVLSKGSLTSLATMFSVSPKTIGRIWKQAKLCMENGLIVNVSSKLTGNVGRKKILIDPR-KVSEIPLRRRTNIRSIAKALNMSKSTV 122
[Close]
BLAST of Transposase, Tc1-like protein vs. TrEMBL
Match: A0A1R3J2B7 (Uncharacterized protein OS=Corchorus olitorius OX=93759 GN=COLO4_20007 PE=4 SV=1)

HSP 1 Score: 188.734 bits (478), Expect = 1.230e-51
Identity = 117/292 (40.07%), Postives = 159/292 (54.45%), Query Frame = 1 
Query:  418 SGNEAKKSVHRMWLQ--------------KNAVKLVKKRRI---LN*MAKFEMCH*TNEKQ-SDHLQVP*K*QKRLHHRIKAGEVGVCMATLKTLLTDANKEKRIMIVFRHLQFFEDGSI----RLLYMVDMVHIDENWFYLTEEQSRYYLETD*VEPHCQVKLKRFIIKVMFLAAVARSRFDAHKNEWFNGKIGIWPFVKMEPAKRNSKNHNRGIFLFTPIVVDNR-------IEKVLTAIKSKWPGNRIKRFFIQQDNARPHISLDDSEFVQHATTDEFDFPLTYQPPNS 1206
            S N + ++V R+WL+                A+  V ++R+   +N +AK  +   TN +  +  L +P      ++ R+K G V      +K  LTD NK+ R+      L    +G++      + M D VHIDE WF++++   RYYL    VEPH   K KRFI KVMF+AAVAR RF    N++FNGKIGI+PFV  EPAKRNSKN   G     PI    +       IE +L AI+ KWP    K  +IQQDNA+PHI  +D+EF++ A  D FD  LT QPPNS
Sbjct:   50 SFNTSTRTVRRIWLEAQRALSVGEPVDLSSKAIGRVGRKRVEIDVNDVAKIPLRRRTNLRSLAQALNMP---TTIVYRRVKEGLVKPHSDAIKPFLTDQNKKVRLKFC---LSMLNNGTLHHNPTFVDMYDYVHIDEKWFFMSKTTERYYLLPSEVEPHRTCKSKRFIPKVMFMAAVARPRFVKESNQFFNGKIGIFPFVYQEPAKRNSKNRRVGTLETKPIASITKEVTRKCLIENILPAIREKWPEYGSKTIYIQQDNAKPHIDSNDAEFLEAARRDGFDIRLTNQPPNS 335
The following BLAST results are available for this feature:
BLAST of Transposase, Tc1-like 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 Transposase, Tc1-like 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 Transposase, Tc1-like 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 Transposase, Tc1-like 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 Transposase, Tc1-like 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 Transposase, Tc1-like 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 Transposase, Tc1-like 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 Transposase, Tc1-like protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
K7LU343.956e-5645.33Uncharacterized protein OS=Glycine max OX=3847 GN=... [more]
O815326.210e-5544.86Mariner transposase OS=Glycine max OX=3847 PE=4 SV... [more]
A0A1R3KIH71.965e-5447.20Transposase, Tc1-like protein OS=Corchorus olitori... [more]
A0A1R3HQ967.812e-5347.21Transposase, Tc1-like protein OS=Corchorus olitori... [more]
A0A1R3J2B71.230e-5140.07Uncharacterized protein OS=Corchorus olitorius OX=... [more]
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BLAST of Transposase, Tc1-like 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 Transposase, Tc1-like 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 Transposase, Tc1-like 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 Transposase, Tc1-like 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 Transposase, Tc1-like 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 Transposase, Tc1-like protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 0
Match NameE-valueIdentityDescription
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30018809 ID=SMED30018809|Name=Transposase, Tc1-like protein|organism=Schmidtea mediterranea sexual|type=transcript|length=1208bp
GATAAATTCAAGACGTTACAAAAGATTTGGAAAAAACAGAAGACAATCAT
TTTATGATATCGACGAATGCGAACAAATATTTTCACATATGAATTATATT
TTAAGTAAGAGCAGAAGCAGTTTGACTGTCCAAAATTCAGATGCTTGTTA
TGGTTTCCGAAGCCTGCTCGATTATTTTGACATTTCATTTTTGTGATTTT
TTTTGTAAACACCATTTCAGTTTTTCGTCATAAAAGTTTAATTTTTTCAA
ATTTTTATCCATAAATATGGAACGAAATAAACGTGAACTTTCCAATGAAC
AAAGGAGGCTAATATATGAGGATTTGCTAAGTGAAAATGACAACGGAATT
CTTAAGAGGGGTGCATACAACTCCATTGCAACTAAATATCATGTGAGTAT
TCAAACTGTAGCCAAAATCTGGAAACGAGGCAAAGAAATCAGTCCATCGA
ATGTGGCTTCAAAAAAACGCAGTCAAGTTGGTGAAAAAAAGACGAATTTT
GAATTGAATGGCAAAATTCGAAATGTGCCACTGAACAAACGAAAAACAAT
CAGATCACTTGCAGGTGCCTTGAAAATGACAAAAACGTCTGCATCACCGG
ATTAAAGCTGGAGAAGTGGGAGTCTGCATGGCAACATTAAAGACTCTGTT
GACAGATGCAAACAAAGAGAAGCGGATTATGATTGTATTCCGTCATTTGC
AATTTTTTGAAGATGGAAGTATTCGACTCCTATATATGGTTGATATGGTT
CACATTGATGAAAATTGGTTTTATCTAACTGAGGAACAAAGTCGTTATTA
CCTTGAAACAGACTAGGTCGAACCGCATTGCCAAGTAAAATTAAAAAGAT
TCATAATAAAAGTGATGTTTCTTGCAGCTGTTGCTAGATCTAGATTTGAT
GCACATAAAAATGAATGGTTTAATGGCAAAATCGGAATTTGGCCATTCGT
AAAAATGGAACCTGCAAAAAGGAATAGCAAAAATCATAATAGAGGCATTT
TTCTTTTCACACCAATTGTTGTTGATAATAGGATTGAAAAAGTACTTACA
GCAATTAAATCTAAGTGGCCTGGAAATCGCATAAAACGATTTTTTATTCA
ACAAGACAACGCTAGACCTCATATTTCACTAGATGATTCAGAATTTGTCC
AACACGCAACAACTGATGAATTTGATTTTCCATTGACCTATCAACCACCT
AATAGCCC
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protein sequence of SMED30018809-orf-1

>SMED30018809-orf-1 ID=SMED30018809-orf-1|Name=SMED30018809-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=113bp
MERNKRELSNEQRRLIYEDLLSENDNGILKRGAYNSIATKYHVSIQTVAK
IWKRGKEISPSNVASKKRSQVGEKKTNFELNGKIRNVPLNKRKTIRSLAG
ALKMTKTSASPD*
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protein sequence of SMED30018809-orf-2

>SMED30018809-orf-2 ID=SMED30018809-orf-2|Name=SMED30018809-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=114bp
MFLAAVARSRFDAHKNEWFNGKIGIWPFVKMEPAKRNSKNHNRGIFLFTP
IVVDNRIEKVLTAIKSKWPGNRIKRFFIQQDNARPHISLDDSEFVQHATT
DEFDFPLTYQPPNS
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: molecular function
TermDefinition
GO:0003677DNA binding
Vocabulary: biological process
TermDefinition
GO:0006313transposition, DNA-mediated
GO:0015074DNA integration
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000035Category 3 cell