SMED30034012
Overview
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 progeniesWe 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
Sub-lethal Irradiated Surviving X1 and X2 Cell Population
Embryonic Expression
Davies et. al., 2017
Hover the mouse over a column in the graph to view average RPKM values per sample. Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult. back to top Anatomical Expression
PAGE et. al., 2020SMED30034012 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 2
Alignments
SMED30034012 aligns in the following genomic locations:
Homology
BLAST of SMED30034012 vs. Ensembl Celegans
Match: F53F4.11 (pep chromosome:WBcel235:V:13622182:13624521:-1 gene:WBGene00009993.1 transcript:F53F4.11.3 gene_biotype:protein_coding transcript_biotype:protein_coding gene_symbol:F53F4.11) HSP 1 Score: 62.7734 bits (151), Expect = 3.661e-11 Identity = 54/187 (28.88%), Postives = 93/187 (49.73%), Query Frame = 3 Query: 201 NNSICILIKDLDRDSELSIKKFQKILQKQS------IDVSN-------IRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVG--PTYPVY 710 N S+C+++ DLD+ S+ + + F ++KQS I+V + +IL +E+ + Y +KR LASTY ++ D R+ + L K ++ P+ +QK ++ AI + L+ + V + +L S + EN ++ +E I PG F NIRSIY+ A P+ P+Y Sbjct: 234 NTSVCVIMPDLDQ-SDAAKRDFD--VEKQSREWAEKIEVDHGLTSAHIAKILTKREVERIAHTYKDKRSLASTYDVFLSDGRVYNSVKSFLGKEFYRAHKCPLPFVYQK-PISTAIENALRTVVYPLRRYMVRSCVNVGHLGQSSADLKENIDTVLEKIASKCPGGFANIRSIYLGASDGKPSLPIY 416
BLAST of SMED30034012 vs. Ensembl Celegans
Match: F53F4.11 (pep chromosome:WBcel235:V:13622107:13624525:-1 gene:WBGene00009993.1 transcript:F53F4.11.2 gene_biotype:protein_coding transcript_biotype:protein_coding gene_symbol:F53F4.11) HSP 1 Score: 62.7734 bits (151), Expect = 3.661e-11 Identity = 54/187 (28.88%), Postives = 93/187 (49.73%), Query Frame = 3 Query: 201 NNSICILIKDLDRDSELSIKKFQKILQKQS------IDVSN-------IRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVG--PTYPVY 710 N S+C+++ DLD+ S+ + + F ++KQS I+V + +IL +E+ + Y +KR LASTY ++ D R+ + L K ++ P+ +QK ++ AI + L+ + V + +L S + EN ++ +E I PG F NIRSIY+ A P+ P+Y Sbjct: 234 NTSVCVIMPDLDQ-SDAAKRDFD--VEKQSREWAEKIEVDHGLTSAHIAKILTKREVERIAHTYKDKRSLASTYDVFLSDGRVYNSVKSFLGKEFYRAHKCPLPFVYQK-PISTAIENALRTVVYPLRRYMVRSCVNVGHLGQSSADLKENIDTVLEKIASKCPGGFANIRSIYLGASDGKPSLPIY 416
BLAST of SMED30034012 vs. Ensembl Celegans
Match: F53F4.11 (pep chromosome:WBcel235:V:13622107:13624521:-1 gene:WBGene00009993.1 transcript:F53F4.11.1 gene_biotype:protein_coding transcript_biotype:protein_coding gene_symbol:F53F4.11) HSP 1 Score: 62.7734 bits (151), Expect = 3.661e-11 Identity = 54/187 (28.88%), Postives = 93/187 (49.73%), Query Frame = 3 Query: 201 NNSICILIKDLDRDSELSIKKFQKILQKQS------IDVSN-------IRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVG--PTYPVY 710 N S+C+++ DLD+ S+ + + F ++KQS I+V + +IL +E+ + Y +KR LASTY ++ D R+ + L K ++ P+ +QK ++ AI + L+ + V + +L S + EN ++ +E I PG F NIRSIY+ A P+ P+Y Sbjct: 234 NTSVCVIMPDLDQ-SDAAKRDFD--VEKQSREWAEKIEVDHGLTSAHIAKILTKREVERIAHTYKDKRSLASTYDVFLSDGRVYNSVKSFLGKEFYRAHKCPLPFVYQK-PISTAIENALRTVVYPLRRYMVRSCVNVGHLGQSSADLKENIDTVLEKIASKCPGGFANIRSIYLGASDGKPSLPIY 416
BLAST of SMED30034012 vs. Ensembl Zebrafish
Match: rsl1d1 (ribosomal L1 domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-130603-67]) HSP 1 Score: 51.2174 bits (121), Expect = 3.958e-7 Identity = 44/187 (23.53%), Postives = 91/187 (48.66%), Query Frame = 3 Query: 201 NNSICILIKD-LDRDSELSIKKFQKILQKQSIDVSNI-RILPLKELTL--MQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKA-VGPTYPVYHTVE*YILSLIE 746 + +C+ +D + +E + + ++K+L ++ V N+ ++P K L + KRKL + ++ D RI R ++ K + P+ VD + +A+ + + + KGP +A+ +M+ + IVEN S++ +I +NI+ I++K+ P+Y T + L+L+E Sbjct: 82 SGDVCLFTRDEPNMTAEQTERFYKKLLTERG--VKNVTEVIPFKALRTEYKPFEAKRKLLGNFDLFLSDARIRFRLPSQIGKHFYERKKAPLSVDLESKHLARDMERLIQGTTLTVSTKGPCCMARVAHSEMTADQIVENVISAVSTISAKLASTGKNIKIIHLKSQTSVALPIY-TSDLSHLALVE 265
BLAST of SMED30034012 vs. Ensembl Zebrafish
Match: rsl1d1 (ribosomal L1 domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-130603-67]) HSP 1 Score: 51.2174 bits (121), Expect = 3.958e-7 Identity = 44/187 (23.53%), Postives = 91/187 (48.66%), Query Frame = 3 Query: 201 NNSICILIKD-LDRDSELSIKKFQKILQKQSIDVSNI-RILPLKELTL--MQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKA-VGPTYPVYHTVE*YILSLIE 746 + +C+ +D + +E + + ++K+L ++ V N+ ++P K L + KRKL + ++ D RI R ++ K + P+ VD + +A+ + + + KGP +A+ +M+ + IVEN S++ +I +NI+ I++K+ P+Y T + L+L+E Sbjct: 82 SGDVCLFTRDEPNMTAEQTERFYKKLLTERG--VKNVTEVIPFKALRTEYKPFEAKRKLLGNFDLFLSDARIRFRLPSQIGKHFYERKKAPLSVDLESKHLARDMERLIQGTTLTVSTKGPCCMARVAHSEMTADQIVENVISAVSTISAKLASTGKNIKIIHLKSQTSVALPIY-TSDLSHLALVE 265
BLAST of SMED30034012 vs. TrEMBL
Match: A0A0R3WIY7 (Uncharacterized protein OS=Hydatigena taeniaeformis OX=6205 GN=TTAC_LOCUS599 PE=4 SV=1) HSP 1 Score: 103.219 bits (256), Expect = 3.628e-22 Identity = 59/176 (33.52%), Postives = 96/176 (54.55%), Query Frame = 3 Query: 210 ICILIKDL-----DRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNH--PIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVY 710 +C+++KDL + +++ +K+Q +K S + + LPL+EL L Y +RKLA+T+ ++ D RI H L K ++ PI V K G+ KAI+ G + ++ +G +SV I N MS+E I EN S I ++ WPG + +RSIY++ GP+ P+Y Sbjct: 63 VCVIVKDLKATDYNASNDIWKRKWQASGEKCS--SATLTFLPLRELKLCYQSYESRRKLAATFDIFLADDRIVHHLSTNLGKAFYGNARDKVPIPVALDKKGLVKAIDEGLHSCLVLVRGRGTTDSVVIGNTSMSRECIKENIVSVIRGVMGKWPGGLKTLRSIYIRGAGPSVPLY 236
BLAST of SMED30034012 vs. TrEMBL
Match: A0A0R3UI81 (Uncharacterized protein OS=Mesocestoides corti OX=53468 GN=MCOS_LOCUS7109 PE=4 SV=1) HSP 1 Score: 100.523 bits (249), Expect = 4.196e-21 Identity = 55/176 (31.25%), Postives = 91/176 (51.70%), Query Frame = 3 Query: 210 ICILIKDLDR-----DSELSIKKFQKILQKQSIDVSNIRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSK--FVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVY 710 +CI++KD+ + S + +K+++ K S + ++ LP+ EL L Y +RKLA+T+ ++ D+RI H L K + + P+ V + + +N G + KG ESV I N M KE I EN +++ ++ WPG IRS+YV+ VGP+ P+Y Sbjct: 62 VCIIVKDIKKTDYNASSNIWKQKWRRDAAKSSTTLPSVTFLPISELKLCYQSYESRRKLAATFDVFLADRRIVHHLPTNLGKAFYSHAAGKIPVPVSLGQKNLVDEVNKGLQTCLVFFSGKGTTESVVIGNTGMPKEHIRENIVAAVRGVVDKWPGGLMAIRSVYVRGVGPSVPIY 237
BLAST of SMED30034012 vs. TrEMBL
Match: A0A068YDK9 (Cellular senescence inhibited locus tag OS=Echinococcus multilocularis OX=6211 GN=EmuJ_001036100 PE=4 SV=1) HSP 1 Score: 96.2857 bits (238), Expect = 1.048e-19 Identity = 57/174 (32.76%), Postives = 89/174 (51.15%), Query Frame = 3 Query: 210 ICILIKDL---DRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNH--PIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVY 710 +C+++KDL D ++ I + + + + + LPL EL L Y +RKLAST+ ++ D+RI H L K ++ PI V + KA++ G + + KG +SV + N M KE I EN S I ++ WPG + +RSIYV+ VGP+ P+Y Sbjct: 62 VCVIVKDLKGTDYNASNDIWRRKWRVDGGKGSPTTVTFLPLSELKLCYQSYESRRKLASTFDVFLADERIVHHLPTNLGKAFYGNARDKVPIPVALDGKNLVKAVDQGLHSCLVLISGKGTTDSVVVGNTSMPKEHIKENVISVIRDVVDRWPGGLKTLRSIYVRGVGPSVPLY 235
BLAST of SMED30034012 vs. TrEMBL
Match: A0A068WJ15 (Cellular senescence inhibited protein OS=Echinococcus granulosus OX=6210 GN=EgrG_001036100 PE=4 SV=1) HSP 1 Score: 95.5153 bits (236), Expect = 2.096e-19 Identity = 58/173 (33.53%), Postives = 87/173 (50.29%), Query Frame = 3 Query: 213 CILIKDL---DRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNH--PIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVY 710 C+++KDL D ++ I + + + + + LPL EL L Y +RKLAST+ ++ D+RI H L K ++ PI V + KAI+ G + + KG +SV + N M KE I EN S I ++ WPG +RSIYV+ VGP+ P+Y Sbjct: 63 CVIVKDLKGTDYNASNDIWRRKWRVDGGKGSPTTVTFLPLSELKLCYQSYESRRKLASTFDVFLADERIVHHLPTNLGKAFYGNARDKVPIPVALDGKNLVKAIDQGLHSCLVLISGKGTTDSVVVGNTSMPKEHIKENVISVIRDVVDRWPGGLRTLRSIYVRGVGPSVPLY 235
BLAST of SMED30034012 vs. TrEMBL
Match: W6ULX1 (Ribosomal L1 domain-containing protein OS=Echinococcus granulosus OX=6210 GN=EGR_02883 PE=4 SV=1) HSP 1 Score: 95.5153 bits (236), Expect = 5.278e-19 Identity = 58/173 (33.53%), Postives = 87/173 (50.29%), Query Frame = 3 Query: 213 CILIKDL---DRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNH--PIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVY 710 C+++KDL D ++ I + + + + + LPL EL L Y +RKLAST+ ++ D+RI H L K ++ PI V + KAI+ G + + KG +SV + N M KE I EN S I ++ WPG +RSIYV+ VGP+ P+Y Sbjct: 133 CVIVKDLKGTDYNASNDIWRRKWRVDGGKGSPTTVTFLPLSELKLCYQSYESRRKLASTFDVFLADERIVHHLPTNLGKAFYGNARDKVPIPVALDGKNLVKAIDQGLHSCLVLISGKGTTDSVVVGNTSMPKEHIKENVISVIRDVVDRWPGGLRTLRSIYVRGVGPSVPLY 305
BLAST of SMED30034012 vs. Planmine SMEST
Match: SMESG000057380.1 (SMESG000057380.1) HSP 1 Score: 429.098 bits (1102), Expect = 1.885e-154 Identity = 228/228 (100.00%), Postives = 228/228 (100.00%), Query Frame = 3 Query: 39 MDLIKENFNAIPQTAFTKSGDQEFENVKVMLNVLYKEXXXXXXXXXXXXXXNDFNNSICILIKDLDRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLMQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVYHTVE 722 MDLIKENFNAIPQTAFTKSGDQEFENVKVMLNVLYKEIPKKPSHIIIPIPHNDFNNSICILIKDLDRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLMQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVYHTVE Sbjct: 1 MDLIKENFNAIPQTAFTKSGDQEFENVKVMLNVLYKEIPKKPSHIIIPIPHNDFNNSICILIKDLDRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLMQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVYHTVE 228 The following BLAST results are available for this feature:
BLAST of SMED30034012 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30034012 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 3
BLAST of SMED30034012 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30034012 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 2
BLAST of SMED30034012 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30034012 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30034012 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30034012 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30034012 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30034012 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30034012 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30034012 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30034012 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30034012 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 1
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30034012 ID=SMED30034012|Name=SMED30034012|organism=Schmidtea mediterranea sexual|type=transcript|length=749bpback to top protein sequence of SMED30034012-orf-1 >SMED30034012-orf-1 ID=SMED30034012-orf-1|Name=SMED30034012-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=229bp MDLIKENFNAIPQTAFTKSGDQEFENVKVMLNVLYKEIPKKPSHIIIPIPback to top Annotated Terms
The following terms have been associated with this transcript:
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
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