SMED30020424
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., 2020SMED30020424 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 1
Alignments
SMED30020424 aligns in the following genomic locations:
Homology
BLAST of SMED30020424 vs. Ensembl Mouse
Match: Utp15 (UTP15 small subunit processome component [Source:MGI Symbol;Acc:MGI:2145443]) HSP 1 Score: 50.0618 bits (118), Expect = 5.874e-6 Identity = 38/128 (29.69%), Postives = 64/128 (50.00%), Query Frame = 1 Query: 493 RMFSWIDEYITCCTINPWENGHLLM-GSVDGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNC-NEKSIRVHKTNSPITSCSMSDGV---LYGFGEANGNVSIFDIRNSR 861 + FS + C T ++G LL+ GS DG++ L+D + + H+K V+TV ++ N ++SG+D+ V LW+ N K I K +S C + + L+ G + V IFD R ++ Sbjct: 74 KTFSRFKDTAYCATFR--QDGQLLVAGSEDGVVQLFDINGRAPLRQFEGHTKAVHTVDFTADNYH-VVSGADDYTVKLWDIPNSKEILTFKEHSDYVRCGCASKLNPDLFVTGSYDHTVKIFDARTNK 198
BLAST of SMED30020424 vs. UniProt/SwissProt
Match: sp|Q94BM7|SPA4_ARATH (Protein SPA1-RELATED 4 OS=Arabidopsis thaliana OX=3702 GN=SPA4 PE=1 SV=1) HSP 1 Score: 59.6918 bits (143), Expect = 4.950e-8 Identity = 35/116 (30.17%), Postives = 63/116 (54.31%), Query Frame = 1 Query: 577 DGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEK-SIRVHKTNSPITSCSMSD--GVLYGFGEANGNVSIFDIRNSREPVYTQ-KNYNSIDYVQF 912 +G++ ++D +++ + H KRV ++ YS + +L+ SGSD+ V LW+ N+ SI KT + I G FG A+ V +D+RN + P+ T ++ ++ YV+F Sbjct: 555 EGVVQVWDVARNQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANICCVQFPSETGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHHKTVSYVRF 670
BLAST of SMED30020424 vs. UniProt/SwissProt
Match: sp|Q9LJR3|SPA3_ARATH (Protein SPA1-RELATED 3 OS=Arabidopsis thaliana OX=3702 GN=SPA3 PE=1 SV=1) HSP 1 Score: 56.6102 bits (135), Expect = 4.287e-7 Identity = 34/116 (29.31%), Postives = 62/116 (53.45%), Query Frame = 1 Query: 577 DGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEK-SIRVHKTNSPITSCSMS--DGVLYGFGEANGNVSIFDIRNSREPVYTQKNYN-SIDYVQF 912 DG++ ++D +++ + H KRV ++ S + +L+ SGSD+ V LW+ N+ SI KT + + G FG A+ V +D+RN + P+ T ++ ++ YV+F Sbjct: 605 DGVVQIWDVARSQLVTEMKEHKKRVWSIDISSADPTLLASGSDDGTVKLWSINQGVSIGTIKTKANVCCVQFPSDSGRSLAFGSADHKVYYYDLRNPKIPLCTMIGHSKTVSYVKF 720
BLAST of SMED30020424 vs. TrEMBL
Match: A0A059BVP7 (Uncharacterized protein OS=Eucalyptus grandis OX=71139 GN=EUGRSUZ_F03314 PE=4 SV=1) HSP 1 Score: 65.0846 bits (157), Expect = 2.367e-7 Identity = 36/116 (31.03%), Postives = 65/116 (56.03%), Query Frame = 1 Query: 577 DGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEK-SIRVHKTNSPITSCSMS--DGVLYGFGEANGNVSIFDIRNSREPVYTQKNYN-SIDYVQF 912 +G++ ++D +++ + H KRV ++ +S + +L+ SGSD+ V LW+ N+ SI KT + + S G FG A+ + +D+RNSR P+ T +N ++ YV+F Sbjct: 476 EGVVQVWDVTRSQVLREMREHEKRVWSIDFSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANVCSVQFPSDSGHSLAFGSADHKIYYYDLRNSRAPLCTLAGHNKTVSYVKF 591
BLAST of SMED30020424 vs. TrEMBL
Match: A0A059BVK7 (Uncharacterized protein OS=Eucalyptus grandis OX=71139 GN=EUGRSUZ_F03314 PE=4 SV=1) HSP 1 Score: 65.4698 bits (158), Expect = 2.502e-7 Identity = 36/116 (31.03%), Postives = 65/116 (56.03%), Query Frame = 1 Query: 577 DGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEK-SIRVHKTNSPITSCSMS--DGVLYGFGEANGNVSIFDIRNSREPVYTQKNYN-SIDYVQF 912 +G++ ++D +++ + H KRV ++ +S + +L+ SGSD+ V LW+ N+ SI KT + + S G FG A+ + +D+RNSR P+ T +N ++ YV+F Sbjct: 672 EGVVQVWDVTRSQVLREMREHEKRVWSIDFSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANVCSVQFPSDSGHSLAFGSADHKIYYYDLRNSRAPLCTLAGHNKTVSYVKF 787
BLAST of SMED30020424 vs. TrEMBL
Match: A0A444SC69 (Protein NEDD1 OS=Armadillidium vulgare OX=13347 GN=Avbf_14587 PE=4 SV=1) HSP 1 Score: 64.6994 bits (156), Expect = 2.701e-7 Identity = 63/264 (23.86%), Postives = 114/264 (43.18%), Query Frame = 1 Query: 145 VEIITAVDYQ--GDTIAIYEMKNRQFKLYTID---LTFKSSFDGKFDLNCLKLYQ--DRWICAGDSWGKLHLFDIHKNSYVKSFSTYXXXXXXXXXXXXDQNHIFACYENGQISVVNLKLDKSRMFSWIDEYITCCTINPWENGHLLMG--SVDGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEKSIRVH-KTNSPITSCS-MSDGVLYGFGEANGNVSIFDIRNSREPVYTQKNYNSIDY 903 + II AV + G ++ + + LYT+D F ++ CL+ + R++ GDS ++ ++D+ N KS++ + SSD + ++ N S E I ++G +G + LYD K+ + + HS V+ V++S NE LM+S + +++ ++ N KSI + +T +P+T S M++G G G V ++D+R P+Y K Y Y Sbjct: 2 IGIIPAVSWNKDGQILSAFNQNTSEVSLYTVDSRSAICSGIFKIPGNVTCLEFCKTNSRYLAIGDSKDQILIWDVKGNYKKKSYTVPKSCITNLSFSSSDSHLAVGTVHGDAFTISNTNNLVSSPIKVFLEKTEVKDIRYSMLNRSIVGVCGGNGYVALYDAITSKVFARHNSHSAPVSNVAFSPINELLMISVGYDKKLISYDVNTKSIVMKCETENPLTCISFMTNGQSVAVGTMKGEVIVYDLRMLSHPLYKTKAYKGPVY 265
BLAST of SMED30020424 vs. TrEMBL
Match: A0A059BWJ4 (Uncharacterized protein OS=Eucalyptus grandis OX=71139 GN=EUGRSUZ_F03314 PE=4 SV=1) HSP 1 Score: 65.0846 bits (157), Expect = 2.754e-7 Identity = 36/116 (31.03%), Postives = 65/116 (56.03%), Query Frame = 1 Query: 577 DGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEK-SIRVHKTNSPITSCSMS--DGVLYGFGEANGNVSIFDIRNSREPVYTQKNYN-SIDYVQF 912 +G++ ++D +++ + H KRV ++ +S + +L+ SGSD+ V LW+ N+ SI KT + + S G FG A+ + +D+RNSR P+ T +N ++ YV+F Sbjct: 519 EGVVQVWDVTRSQVLREMREHEKRVWSIDFSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANVCSVQFPSDSGHSLAFGSADHKIYYYDLRNSRAPLCTLAGHNKTVSYVKF 634
BLAST of SMED30020424 vs. TrEMBL
Match: A0A507EQ58 (WD_REPEATS_REGION domain-containing protein OS=Spizellomyces sp. 'palustris' OX=117820 GN=SpCBS45565_g05208 PE=4 SV=1) HSP 1 Score: 64.3142 bits (155), Expect = 3.910e-7 Identity = 38/136 (27.94%), Postives = 70/136 (51.47%), Query Frame = 1 Query: 520 ITCCTINPWENGHLLMGSVDGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEKSIRVHKTNSPITSCSM----SDGVLYGFGEANGNVSIFDIRNSREPVYT-QKNYNSIDYVQF 912 I+C T NP+ HL+ +GI+ L+D I + + H KR +V + + + SG D+ +V +W+ N+K+ V +S CS+ + FG A+ + +DIR+ R P++ + + ++ YV+F Sbjct: 384 ISCLTWNPYIRNHLVSSDYEGIVTLWDAGIGRAMCHFEEHEKRAWSVDWCQTDPLRLASGGDDTKVKIWSTNQKN-SVATIHSAANVCSVKFNPENSNHIAFGSADHKIHYYDIRDMRAPLHVFEGHRKAVSYVKF 518
BLAST of SMED30020424 vs. Planmine SMEST
Match: SMESG000059975.1 (SMESG000059975.1) HSP 1 Score: 853.588 bits (2204), Expect = 0.000e+0 Identity = 451/451 (100.00%), Postives = 451/451 (100.00%), Query Frame = 1 Query: 103 MTTCKPKLNSIDFDVEIITAVDYQGDTIAIYEMKNRQFKLYTIDLTFKSSFDGKFDLNCLKLYQDRWICAGDSWGKLHLFDIHKNSYVKSFSTYXXXXXXXXXXXXDQNHIFACYENGQISVVNLKLDKSRMFSWIDEYITCCTINPWENGHLLMGSVDGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEKSIRVHKTNSPITSCSMSDGVLYGFGEANGNVSIFDIRNSREPVYTQKNYNSIDYVQFCFKSFQNKTDDFFDCLNSSENLINKENLDDSLASCFSVGAHSKSSQKXXXXXXXXXXXXXXXXXXXXXGKDSAIKSFNTPIASKKIFGDFDTPKNQSSHKPKQPIKPSNLPLRDVIQNKIEISLRSMEDRIHTNIMSQIIDQFAISENIIINKLMQFRETNEELRRINENLKEKCNQLPYM 1455 MTTCKPKLNSIDFDVEIITAVDYQGDTIAIYEMKNRQFKLYTIDLTFKSSFDGKFDLNCLKLYQDRWICAGDSWGKLHLFDIHKNSYVKSFSTYSNESIIEIVISSDQNHIFACYENGQISVVNLKLDKSRMFSWIDEYITCCTINPWENGHLLMGSVDGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEKSIRVHKTNSPITSCSMSDGVLYGFGEANGNVSIFDIRNSREPVYTQKNYNSIDYVQFCFKSFQNKTDDFFDCLNSSENLINKENLDDSLASCFSVGAHSKSSQKSNLSLDFSVSSNNSFNDFNSSGKDSAIKSFNTPIASKKIFGDFDTPKNQSSHKPKQPIKPSNLPLRDVIQNKIEISLRSMEDRIHTNIMSQIIDQFAISENIIINKLMQFRETNEELRRINENLKEKCNQLPYM Sbjct: 1 MTTCKPKLNSIDFDVEIITAVDYQGDTIAIYEMKNRQFKLYTIDLTFKSSFDGKFDLNCLKLYQDRWICAGDSWGKLHLFDIHKNSYVKSFSTYSNESIIEIVISSDQNHIFACYENGQISVVNLKLDKSRMFSWIDEYITCCTINPWENGHLLMGSVDGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEKSIRVHKTNSPITSCSMSDGVLYGFGEANGNVSIFDIRNSREPVYTQKNYNSIDYVQFCFKSFQNKTDDFFDCLNSSENLINKENLDDSLASCFSVGAHSKSSQKSNLSLDFSVSSNNSFNDFNSSGKDSAIKSFNTPIASKKIFGDFDTPKNQSSHKPKQPIKPSNLPLRDVIQNKIEISLRSMEDRIHTNIMSQIIDQFAISENIIINKLMQFRETNEELRRINENLKEKCNQLPYM 451
BLAST of SMED30020424 vs. Planmine SMEST
Match: SMESG000038919.1 (SMESG000038919.1) HSP 1 Score: 242.662 bits (618), Expect = 1.079e-72 Identity = 129/321 (40.19%), Postives = 201/321 (62.62%), Query Frame = 1 Query: 85 IDIFDKMTTCKPKLNSIDFDVEIITAVDYQGDTIAIYEMKNRQFKLYTIDLTFKSSFDGKFDLNCLKLYQDRWICAGDSWGKLHLFDIHKNSYVKSFSTYXXXXXXXXXXXXDQNHIFACYENGQISVVNLKLDKSRMFSWIDEYITCCTINPWENGHLLMGSVDGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNEKS-IRVHKTNSPITSCSMSDGVLYGFGEANGNVSIFDIRNSREPVYTQKNYNSIDYVQFCFKSFQNKTDDF--FDCLNS-----SENLINKENLDDSLASCFS 1023 +D+F + +PKL ++ F +I+ + DY G I ++E R K Y + T KSS GK D+NCL LY+D I AG + G +H+FD+ K Y+KSF+T S +SI+ I ++ D +IF+ Y +G +S + +K +WI ++C PW LL+G +DG + LYD E+ + S H+ +VN VSYSY+NE L +SG ++ Q+VL+N NEK+ ++ KT+SP+TSCSMS+GV + FGE NG ++++DIRN ++ +++ K+ + I+Y+QF F SF T D F ++ S+ L+ K N + S+ASCFS Sbjct: 149 LDVFFFKESGRPKLRTVYFQNDILVSSDYLGQNIGVFERSGRTIKTYNRETTLKSSVLGKLDMNCLALYKDVHIFAGGNKGNIHVFDLRKEKYLKSFNTNSEKSIVNIELTIDNRNIFSVYSDGTVSKLEIKNKNVNHLTWISGQVSCIKSCPWAVNKLLLGFLDGSVNLYDVNSERKLFASVAHTNKVNCVSYSYHNELLAMSGGNDKQIVLYNINEKTPMKTLKTSSPVTSCSMSEGVFFSFGEENGTITVYDIRNLKKAIFSHKSDSKINYLQFSFDSFLKNTKDTDSFQAFSTSSCSVSKALVRKSNYNCSVASCFS 469
BLAST of SMED30020424 vs. Planmine SMEST
Match: SMESG000039027.1 (SMESG000039027.1) HSP 1 Score: 226.098 bits (575), Expect = 2.027e-68 Identity = 145/425 (34.12%), Postives = 231/425 (54.35%), Query Frame = 1 Query: 220 LYTIDLTFKSSFDGKFDLNCLKLYQDRWICAGDSWGKLHLFDIHKNSYVKSFSTYXXXXXXXXXXXXDQNHIFACYENGQISVVNLKLDKSRMFSWIDEYITCCTINPWENGHLLMGSVDGIIGLYDTEIEKIINKSHCHSKRVNTVSYSYYNESLMLSGSDNNQVVLWNCNE-KSIRVHKTNSPITSCSMSDGVLYGFGEANGNVSIFDIRNSREPVYTQKNYNSIDYVQFCFKSFQNK-TDDFFDCLNSSENLINKENLDDSLASCFSVGAHSKSSQKXXXXXXXXXXXXXXXXXXXXXGKDS-AIKSFNTPIASKKIFGDFDTPKNQSSHKPKQPI-KPSNLP-------------LRDVIQNKIEISLRSMEDRIHTNIMSQIIDQFAISENIIINKLMQFRETNEELRRINENLKEKCNQ 1443 +YT + T KSS +G F+ NC+ LY + G++ GK+ ++D+ N K F T ++ I +S D +IF CY +G++S + +K + +WI E I C I+PW +LL+GSV+G + LYD + S+ H VN VSYSY+N+ + +SG ++ Q +L+ NE + ++ +KT SP+T CS+SDGVL+ FGEANG++SI+DIR + VY K + I Y+QF +KS QN + ++ + S NK + D SL SCFS G +S ++ + ++ +S S K N K++ F+TP N + P P+ KP ++ LR I ++ L +EDR+ ++I+ + IDQ I+EN II ++ EL + N++L EK N+ Sbjct: 3 IYTAEGTLKSSLNGNFNFNCMVLYGSDCLLTGENHGKIRVYDLKNNLTRKLFDTNYPITVDLIDVSIDNKNIFVCYADGKVSKLEIKTARVDNLTWISEKIKCLKISPWVANNLLVGSVNGSVSLYDANNHSRVFTSNTHKGMVNCVSYSYFNDKIAISGGEDKQAILYGINESRPLKTYKTISPVTHCSISDGVLFSFGEANGDISIYDIRKLNKFVYFHKLNDRISYLQFTYKSHQNGDSIEYLSTIEQSGGYANKLSYDCSLESCFSEGEYSVHYNNNHQISCDGFNISHINQRKSSLSPVSNEFKLSNENKLRKQV--QFETPVNNNPSVPIDPVAKPESIIESNIQSGGFDKEFLRQTIHEELNKQLMELEDRLSSDILMKTIDQLFITENNIIQSILPVVTETRELLKENKSLCEKLNR 425 The following BLAST results are available for this feature:
BLAST of SMED30020424 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30020424 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30020424 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30020424 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30020424 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30020424 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 1
BLAST of SMED30020424 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 2
BLAST of SMED30020424 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30020424 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30020424 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30020424 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30020424 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30020424 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30020424 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 3
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30020424 ID=SMED30020424|Name=SMED30020424|organism=Schmidtea mediterranea sexual|type=transcript|length=1516bpback to top protein sequence of SMED30020424-orf-1 >SMED30020424-orf-1 ID=SMED30020424-orf-1|Name=SMED30020424-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=475bp MKKKVGSFIICHGDVCRIDIFDKMTTCKPKLNSIDFDVEIITAVDYQGDTback to top Annotated Terms
The following terms have been associated with this transcript:
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