SMED30014560

Overview
NameSMED30014560
Smed IDSMED30014560
Length (bp)1917
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 SMED30014560 (SMED30014560) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30014560 (SMED30014560) 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 SMED30014560 (SMED30014560) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30014560 (SMED30014560) 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



SMED30014560

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



PAGE Curations: 10

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X1 cellSMED30014560SMESG000026537.1 SmedASXL_015350SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
nervous systemSMED30014560SMESG000026537.1 dd_Smed_v4_858_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
gutSMED30014560SMESG000026537.1 dd_Smed_v4_858_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30014560SMESG000026537.1 dd_Smed_v4_858_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30014560SMESG000026537.1 dd_Smed_v4_858_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30014560SMESG000026537.1 dd_Smed_v4_858_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30014560SMESG000026537.1 dd_Smed_v4_858_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
muscle cellSMED30014560SMESG000026537.1 dd_Smed_v4_858_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
gamma neoblastSMED30014560SMESG000026537.1 dd_Smed_v6_858_0dd_Smed_v6PMID:29674432
Plass et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30014560SMESG000026537.1 dd_Smed_v6_858_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
Alignments
SMED30014560 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.005284:11972..14632 +9167
Homology
[Close]
BLAST of SMED30014560 vs. TrEMBL
Match: A0A1I7YCX9 (Uncharacterized protein OS=Steinernema glaseri OX=37863 PE=4 SV=1)

HSP 1 Score: 63.1586 bits (152), Expect = 1.731e-6
Identity = 41/172 (23.84%), Postives = 90/172 (52.33%), Query Frame = 2 
Query:  272 MIEESLNILKEKGKAKNIIVYNQMMYSLWANKIEFDVDLFLHDIVENKLRINSETFDMIIKCYSREKRIDDIEEVLKKMEKEKIQLLRKTLPDVVYAYTVTGQEEKGKEFMKANQVDEDM--LSIKVAKMRAYAAIGD---TTKLFQLINSFPEI----NKGFILSDLYRIM 760
            +  E L++L + G    I+ +N ++ +   N  + DV  +L  + +  L  NSETF +  + Y+R+  I+ ++ V+  M    + +  K L  ++YA T+ G   +  E +K+ + +  +  L +++A++RA  A+GD    + +   I + PE      +G +L+ +++++
Sbjct:  141 LFNEFLSLLGQSGFKSGILTHNAILTARLDNGSDVDVLAYLDKLDDEGLDANSETFSLFAEIYARKGDINGVKSVIGLMRDSGLPVTEKALHAMIYALTLKGDRVQAAEVLKSFESNAAISTLGMRLAQVRALTALGDLAGVSNVLADIATEPEFTSPETQGQLLTTMFQLV 312
[Close]
BLAST of SMED30014560 vs. Planmine SMEST
Match: SMESG000026537.1 (SMESG000026537.1)

HSP 1 Score: 1170.99 bits (3028), Expect = 0.000e+0
Identity = 567/579 (97.93%), Postives = 575/579 (99.31%), Query Frame = 2 
Query:   50 MALSFTARLFINNRVLRTERILQSLPKCNVYESAKKYVNAVKKINLENTLTGSSELVQFPFKSFYKFPVDCLKTMIEESLNILKEKGKAKNIIVYNQMMYSLWANKIEFDVDLFLHDIVENKLRINSETFDMIIKCYSREKRIDDIEEVLKKMEKEKIQLLRKTLPDVVYAYTVTGQEEKGKEFMKANQVDEDMLSIKVAKMRAYAAIGDTTKLFQLINSFPEINKGFILSDLYRIMSKTNASDFSLDALIGMMKEDVLVETIKLMNFEKFYNKGLRILEQNIENISDKLIYRSLMTFDTPTCPPHIYKTVLDLTLSHIFRVRTNSNVFTFMSFDDALSYSFKASSAATNRILSFSLLNKAVETKSFDNIHEALKFGQTALTQRMWHYMIQTVLIEKTLITKLVKDSTELMSIFTHSQYGLLPDVILYHICSGEFSEVTRLEASFPDQVFHRYATGLNYLVHRLVTMLGVKNFPQVKQEVSKFFTPAFVNKLFSVTFVKLLVNDSECDASFEDDLKSIKELQVKFMPDNISYLCRTCPSRAEVFNSFPTMELSRPHDASYTKDNIEKEHEEFDNETKEF 1786
            MALSFTARLFINNRVLRTERILQSLPKCNVYESAKKYVNAVKKINLENTLTGSSELVQFPFKSFYKFPVDCLKTMIEESLNILKEKGKAKNIIVYNQMM+SLW+NKIEFDVDLFLHDIVENKLRINSETFDMIIKCYSREKRIDDIEEVLKKMEKE IQLLRKTLPDVVYAYTVTGQEEKGKEFMKANQVDEDMLSIKVAKMRAYAAIGDTTKLFQLINS PEINKGFILSDLYRIMSKTNASDFSLDALIGMMKEDVLVETIKLMNFEKFYNKGLRILEQNIENISDKLIYRSLMTFDTPTCPPHIYK VLDLTLSHIFRVRTNSNVFTFMSFDDALSYS KASSAATNRILSFSLLNKAVETKSFDNIHEALKFGQTALTQRMWHYMIQTVLI+KTLITKLVKDSTELMSIFTHSQYGLLPDVILYHICSG+FSEVTRLEASFPDQVFHRYATGLNYLVHRLVT+LGVKNFPQVKQE+SKFFTPAFVNKLFS+TFVKLLVNDSECDASFEDDLKSIKELQVKFMPDNISYLCRTCPSRAEVFNSFPT+ELSRPHDASYTKDNIEKEHEEFDNETKEF
Sbjct:    1 MALSFTARLFINNRVLRTERILQSLPKCNVYESAKKYVNAVKKINLENTLTGSSELVQFPFKSFYKFPVDCLKTMIEESLNILKEKGKAKNIIVYNQMMFSLWSNKIEFDVDLFLHDIVENKLRINSETFDMIIKCYSREKRIDDIEEVLKKMEKENIQLLRKTLPDVVYAYTVTGQEEKGKEFMKANQVDEDMLSIKVAKMRAYAAIGDTTKLFQLINSLPEINKGFILSDLYRIMSKTNASDFSLDALIGMMKEDVLVETIKLMNFEKFYNKGLRILEQNIENISDKLIYRSLMTFDTPTCPPHIYKNVLDLTLSHIFRVRTNSNVFTFMSFDDALSYSLKASSAATNRILSFSLLNKAVETKSFDNIHEALKFGQTALTQRMWHYMIQTVLIDKTLITKLVKDSTELMSIFTHSQYGLLPDVILYHICSGDFSEVTRLEASFPDQVFHRYATGLNYLVHRLVTVLGVKNFPQVKQEISKFFTPAFVNKLFSMTFVKLLVNDSECDASFEDDLKSIKELQVKFMPDNISYLCRTCPSRAEVFNSFPTVELSRPHDASYTKDNIEKEHEEFDNETKEF 579
[Close]
BLAST of SMED30014560 vs. Planmine SMEST
Match: SMESG000027150.1 (SMESG000027150.1)

HSP 1 Score: 178.718 bits (452), Expect = 2.124e-48
Identity = 152/563 (27.00%), Postives = 281/563 (49.91%), Query Frame = 2 
Query:   50 MALSFTARLFINNRVLRTERILQSLPKC--NVYESAKKYVNAVKKINLENTLTGSSELVQFPFKSFYKFPVDCLKTMIEESLNILKEKGKAKNIIVYNQMMYSLWANKIEFDVDLFLHDIVENKLRINSETFDMIIKCYSREKRIDDIEEVLKKMEKEKIQLLRKTLPDVVYAYTVTGQEEKGKEFMKANQVDEDMLSIKVAKMRAYAAIGD----TTKLFQLINSFPEINKGFILSDLYRIMSKTNASDFSLDALIGMMKEDVLVETIKL------MNFEKFYNKGLRILEQNIENISDKLIYRSLMTFDTPTCPPHIYKTVLDLTLSHIFRVRTNSNVFTFMSFDDALSYSFKASSAATNRILSFSLLNKAVETKSFDNIHEALKFGQTALTQRMWHYMIQTVLIEKTLITKLVKDSTELMSIFTHSQYGLLPDVILYHICSGEFSEVTRLEASFPDQVFHRYATGLNYLVHRLVTMLGVKNFPQVKQEVSKFFTPA----FVNKLFSVTFVKLLVNDSECDASFEDDLKSIKELQVKFMPDNISYLCRTCPSRAEVFNSF 1690
            MA   T RL I ++ L TE I+++L K   NV     +YV  +K +N+      + EL++FP+KSF+ F    +K +I+ES  I+KE+  A ++ VYN ++ S     I+FD+D  L +I + K+  N +T+ ++IK Y++   +D IE ++ KM+   + +  K L  ++ AY V G +EK + F+K N +DE+ + + ++K ++YA +GD    T  LF++  +    +  +  + +Y ++         L+ +I +MK+ ++ + I +      +N  K +++ L  L+  +  + +   +  +  F  P CP  +YK VL L L  I       N F+ M F++A+ ++   S+      +  SL+NKA+  KS +NI  ++ F    +     + ++Q +++   +  K+V +  E++S+F       L  +++ ++  G+F E   L   +       +   L YL   +   L  K F Q + E  K+FT      FV+K      V LL  + +    F      ++ L  +F  D+ ++L   CP + EVF  F
Sbjct:    1 MAFFATIRLMIVSKSL-TEPIIRNLLKFTPNVSSLKDEYVLYLKNLNIPLNKHNAFELLEFPYKSFHMFSDIDMKKIIDESFKIIKEQDLANSVSVYNALINSQVDFDIDFDIDTILSEISKKKITFNQDTYKILIKYYAKRGNLDAIELIVSKMKSMNLTVSNKQLMIILSAYYVNGLQEKAQMFIKENNMDENGIYVTLSKAKSYATLGDVNNATKHLFEIYKNDLSFSSKYCFT-IYSLLVAAGTPKPQLEKIIKVMKKMIVKKPIYIHFAIQKLNKAKCFDQSLIFLKDFLNFVDETTAFYLIELFTIPACPKKVYKNVLKLLLCRIGTTNNVFNAFSNMEFEEAMEFAVAESNERNIECICKSLINKALREKSLENIEASINFTMHNMFWTRVNLILQHMVLPFAVELKIVSNHEEILSLFPQFNNIFLSVILMNYLTYGKFKEYDTLRKKYLHLTNVPFMAELGYLCKTISDNLSPKEFEQFESEGKKYFTEKCIRNFVHKASFYRIVNLLKTNQDAKEMFS----LLERLNYQFQEDDFNFLKIKCPDKIEVFKPF 557
[Close]
BLAST of SMED30014560 vs. Planmine SMEST
Match: SMESG000027150.1 (SMESG000027150.1)

HSP 1 Score: 174.481 bits (441), Expect = 6.646e-47
Identity = 145/546 (26.56%), Postives = 272/546 (49.82%), Query Frame = 2 
Query:  101 TERILQSLPKC--NVYESAKKYVNAVKKINLENTLTGSSELVQFPFKSFYKFPVDCLKTMIEESLNILKEKGKAKNIIVYNQMMYSLWANKIEFDVDLFLHDIVENKLRINSETFDMIIKCYSREKRIDDIEEVLKKMEKEKIQLLRKTLPDVVYAYTVTGQEEKGKEFMKANQVDEDMLSIKVAKMRAYAAIGD----TTKLFQLINSFPEINKGFILSDLYRIMSKTNASDFSLDALIGMMKEDVLVETIKL------MNFEKFYNKGLRILEQNIENISDKLIYRSLMTFDTPTCPPHIYKTVLDLTLSHIFRVRTNSNVFTFMSFDDALSYSFKASSAATNRILSFSLLNKAVETKSFDNIHEALKFGQTALTQRMWHYMIQTVLIEKTLITKLVKDSTELMSIFTHSQYGLLPDVILYHICSGEFSEVTRLEASFPDQVFHRYATGLNYLVHRLVTMLGVKNFPQVKQEVSKFFTPA----FVNKLFSVTFVKLLVNDSECDASFEDDLKSIKELQVKFMPDNISYLCRTCPSRAEVFNSF 1690
            TE I+++L K   NV     +YV  +K +N+      + EL++FP+KSF+ F    +K +I+ES  I+KE+  A ++ VYN ++ S     I+FD+D  L +I + K+  N +T+ ++IK Y++   +D IE ++ KM+   + +  K L  ++ AY V G +EK + F+K N +DE+ + + ++K ++YA +GD    T  LF++  +    +  +  + +Y ++         L+ +I +MK+ ++ + I +      +N  K +++ L  L+  +  + +   +  +  F  P CP  +YK VL L L  I       N F+ M F++A+ ++   S+      +  SL+NKA+  KS +NI  ++ F    +     + ++Q +++   +  K+V +  E++S+F       L  +++ ++  G+F E   L   +       +   L YL   +   L  K F Q + E  K+FT      FV+K      V LL  + +    F      ++ L  +F  D+ ++L   CP + EVF  F
Sbjct:    8 TEPIIRNLLKFTPNVSSLKDEYVLYLKNLNIPLNKHNAFELLEFPYKSFHMFSDIDMKKIIDESFKIIKEQDLANSVSVYNALINSQVDFDIDFDIDTILSEISKKKITFNQDTYKILIKYYAKRGNLDAIELIVSKMKSMNLTVSNKQLMIILSAYYVNGLQEKAQMFIKENNMDENGIYVTLSKAKSYATLGDVNNATKHLFEIYKNDLSFSSKYCFT-IYSLLVAAGTPKPQLEKIIKVMKKMIVKKPIYIHFAIQKLNKAKCFDQSLIFLKDFLNFVDETTAFYLIELFTIPACPKKVYKNVLKLLLCRIGTTNNVFNAFSNMEFEEAMEFAVAESNERNIECICKSLINKALREKSLENIEASINFTMHNMFWTRVNLILQHMVLPFAVELKIVSNHEEILSLFPQFNNIFLSVILMNYLTYGKFKEYDTLRKKYLHLTNVPFMAELGYLCKTISDNLSPKEFEQFESEGKKYFTEKCIRNFVHKASFYRIVNLLKTNQDAKEMFS----LLERLNYQFQEDDFNFLKIKCPDKIEVFKPF 548
The following BLAST results are available for this feature:
BLAST of SMED30014560 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 SMED30014560 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 SMED30014560 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 SMED30014560 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30014560 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 SMED30014560 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 SMED30014560 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 SMED30014560 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 1
Match NameE-valueIdentityDescription
A0A1I7YCX91.731e-623.84Uncharacterized protein OS=Steinernema glaseri OX=... [more]
back to top
BLAST of SMED30014560 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 SMED30014560 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30014560 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 SMED30014560 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 SMED30014560 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30014560 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 3
Match NameE-valueIdentityDescription
SMESG000026537.10.000e+097.93SMESG000026537.1[more]
SMESG000027150.12.124e-4827.00SMESG000027150.1[more]
SMESG000027150.16.646e-4726.56SMESG000027150.1[more]
back to top
Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30014560 ID=SMED30014560|Name=SMED30014560|organism=Schmidtea mediterranea sexual|type=transcript|length=1917bp
CTTTTAATGCACTGATCCGTAATAGAATTGAAAAATTTAAATTATTTTAA
TGGCTCTATCATTCACAGCTCGTCTTTTTATAAACAACAGAGTTTTACGA
ACGGAAAGAATTTTGCAAAGTTTACCTAAATGTAATGTTTATGAGTCAGC
TAAAAAGTACGTAAATGCTGTTAAGAAAATTAACTTAGAAAACACATTAA
CTGGATCTTCAGAATTGGTACAATTTCCATTTAAAAGTTTTTATAAGTTT
CCTGTTGATTGCTTAAAGACAATGATCGAAGAATCATTAAATATTTTGAA
AGAGAAAGGCAAAGCTAAAAACATAATTGTTTATAATCAAATGATGTACT
CTCTTTGGGCAAATAAAATTGAGTTTGATGTCGATTTATTTTTACATGAT
ATCGTAGAGAACAAACTGAGAATCAATTCTGAAACGTTCGATATGATTAT
CAAATGTTATTCCAGGGAAAAGCGAATCGATGATATAGAGGAAGTGCTTA
AAAAAATGGAGAAAGAAAAAATTCAATTGCTGAGAAAGACTTTACCTGAT
GTCGTTTACGCTTACACTGTAACAGGTCAAGAAGAAAAGGGTAAGGAGTT
TATGAAAGCCAATCAAGTCGATGAGGACATGTTGTCAATAAAGGTCGCTA
AAATGCGCGCTTACGCTGCTATCGGTGACACGACAAAATTATTTCAATTA
ATAAACAGCTTTCCCGAAATTAACAAAGGATTCATCCTAAGCGATCTGTA
TAGGATAATGAGTAAAACTAATGCGTCAGATTTTTCATTGGATGCGTTGA
TCGGGATGATGAAAGAAGACGTGCTTGTCGAAACGATCAAGTTAATGAAT
TTCGAAAAATTCTACAATAAAGGGTTGCGCATACTCGAGCAGAACATTGA
GAATATCAGCGATAAGCTGATTTATCGCTCCTTGATGACATTTGATACTC
CGACTTGCCCGCCACATATTTACAAAACCGTTTTGGATTTAACACTGTCT
CATATTTTTCGGGTGCGCACGAACTCCAACGTTTTCACCTTTATGAGTTT
CGATGACGCGCTCTCATACTCATTTAAGGCCAGCTCGGCGGCCACTAACC
GTATACTCAGTTTCTCGCTTCTCAATAAAGCCGTCGAAACGAAATCCTTC
GACAATATTCACGAAGCACTGAAATTCGGCCAGACCGCGCTGACGCAACG
GATGTGGCATTATATGATCCAGACCGTTCTGATAGAGAAAACGCTCATAA
CGAAGCTCGTCAAGGACTCCACCGAGCTCATGAGCATCTTTACCCACTCG
CAATACGGCCTGCTACCGGACGTGATCCTGTACCACATTTGTAGCGGCGA
GTTCAGTGAGGTCACCCGATTGGAAGCCAGTTTCCCAGATCAGGTCTTTC
ACCGCTATGCGACCGGTTTGAACTACTTGGTACACAGATTGGTTACTATG
CTTGGCGTCAAGAACTTCCCCCAGGTCAAGCAGGAGGTCAGCAAGTTTTT
CACCCCTGCGTTTGTCAACAAGCTGTTTTCAGTGACATTTGTAAAGCTGT
TGGTTAATGATTCTGAATGCGATGCATCATTTGAAGATGATCTCAAATCC
ATAAAGGAATTGCAAGTGAAATTCATGCCGGATAACATATCGTATTTGTG
CAGAACTTGCCCAAGTCGTGCTGAGGTTTTCAATTCGTTTCCCACGATGG
AGTTGTCGCGACCTCATGACGCGTCTTATACCAAAGATAATATAGAGAAA
GAACACGAGGAATTCGATAATGAAACAAAAGAGTTTTAATGTTGGAAAAT
ATAAAATTGTCTATTTGTGAGATTTCTTCTGTTTCCCTTATTTTATAGGA
GAGATTCATCGCTTTTAAACTAATGTTTCATAAATCAATAAATAATAATT
CGTTTGTTTTAAAAAAA
back to top

protein sequence of SMED30014560-orf-1

>SMED30014560-orf-1 ID=SMED30014560-orf-1|Name=SMED30014560-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=580bp
MALSFTARLFINNRVLRTERILQSLPKCNVYESAKKYVNAVKKINLENTL
TGSSELVQFPFKSFYKFPVDCLKTMIEESLNILKEKGKAKNIIVYNQMMY
SLWANKIEFDVDLFLHDIVENKLRINSETFDMIIKCYSREKRIDDIEEVL
KKMEKEKIQLLRKTLPDVVYAYTVTGQEEKGKEFMKANQVDEDMLSIKVA
KMRAYAAIGDTTKLFQLINSFPEINKGFILSDLYRIMSKTNASDFSLDAL
IGMMKEDVLVETIKLMNFEKFYNKGLRILEQNIENISDKLIYRSLMTFDT
PTCPPHIYKTVLDLTLSHIFRVRTNSNVFTFMSFDDALSYSFKASSAATN
RILSFSLLNKAVETKSFDNIHEALKFGQTALTQRMWHYMIQTVLIEKTLI
TKLVKDSTELMSIFTHSQYGLLPDVILYHICSGEFSEVTRLEASFPDQVF
HRYATGLNYLVHRLVTMLGVKNFPQVKQEVSKFFTPAFVNKLFSVTFVKL
LVNDSECDASFEDDLKSIKELQVKFMPDNISYLCRTCPSRAEVFNSFPTM
ELSRPHDASYTKDNIEKEHEEFDNETKEF*
back to top
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000026gut
PLANA:0000039gamma neoblast
PLANA:0000429neoblast
PLANA:0002032epidermal cell
PLANA:0002109X1 cell
Vocabulary: INTERPRO
TermDefinition
IPR011990TPR-like_helical_dom_sf
IPR002885Pentatricopeptide_repeat
Vocabulary: molecular function
TermDefinition
GO:0005515protein binding
GO:0003677DNA binding
Vocabulary: biological process
TermDefinition
GO:0006302double-strand break repair
GO:0006310DNA recombination
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 143..163
IPR011990Tetratricopeptide-like helical domain superfamilyGENE3DG3DSA:1.25.40.10coord: 70..244
e-value: 1.4E-9
score: 39.8
IPR002885Pentatricopeptide repeatTIGRFAMTIGR00756TIGR00756coord: 129..159
e-value: 1.3E-5
score: 23.0
IPR002885Pentatricopeptide repeatPROSITEPS51375PPRcoord: 126..160
score: 10.534