SMED30015789
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., 2020SMED30015789 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 4
Alignments
SMED30015789 aligns in the following genomic locations:
Homology
BLAST of SMED30015789 vs. TrEMBL
Match: I1ZID3 (Uncharacterized protein OS=Schmidtea mediterranea OX=79327 PE=2 SV=1) HSP 1 Score: 79.7221 bits (195), Expect = 1.439e-12 Identity = 102/377 (27.06%), Postives = 162/377 (42.97%), Query Frame = 3 Query: 81 ALECFNLCGYSSYDQLYNFDEEDFENLERYIRNYCSNLTIGERKKYVN-DTFAINPQNFTFSPLVKSEILKKCAKISGQID-LQRIMGTPKLLNNFT------FQPENNSKLPAVECSESLIVSYQNHNSNSYVNSPSLEIDVSNDISMELSFSNNDDSYLANDSIHEYVMKTASLKFKDCNLKKHEHFNIFKLNSNKLTGYFQCKICPKVHDKFKTYKFSFSNYGSLNFMNIKVHLLTHFSTK-ESEPLKRGRR--SSV---LNQT--QLELCDGSYSKN-----VIDLAANCFASCQLKTD-DFAIYK----DTSNVLVGYFICKIC--PNDSQKHLKFSFTNYQSLNFSNIKTHLTSHFKKKKPIENTR-GRKR 1124 + LCG+ + + + +E ++E YI + CS+++ ER+KY++ + F PQ F F+P +KS +L IS Q + +I + L+ F + +N +L CS L S N S+ N I D+ +L S+ D+ + + F C++ +H N++ G F KF + S S++ I VH+ H K ES +K R SSV LN++ ++L D S N +I A F C L D DF +Y+ D+S G F+C IC ++ +KF FT+ +S+ F+NI HL HF+ P RKR Sbjct: 18 VINWLELCGFETLEDIEYLNENVIADMESYIGSICSSMSFDEREKYIHVNLFKKFPQQFKFTPCLKSRLLNVADAISRQFNKSSQINRSGPFLSKFVQKFNKDYLADNGYRL----CSRDLYDSVSNSIRRSFQN-----IKYRFDLEFDLYQSDKDEKHETKNG------------FFACSINQH----------NEICGEFI---------KFYIDQDSL----SIDIEPILVHIELHLDRKSESSSIKTKSRILSSVEIDLNKSSRSIDLADAKLSNNFIHNEIIKFAEQKFIDCHLVQDIDFNVYEIIDDDSSLTNRGCFLCYICLKTKSNESKIKFFFTSTRSVVFTNIVAHLRIHFQSVAPFATAAVSRKR 350
BLAST of SMED30015789 vs. Planmine SMEST
Match: SMESG000071713.1 (SMESG000071713.1) HSP 1 Score: 745.732 bits (1924), Expect = 0.000e+0 Identity = 365/370 (98.65%), Postives = 367/370 (99.19%), Query Frame = 3 Query: 42 MNNASYFNAELIRALECFNLCGYSSYDQLYNFDEEDFENLERYIRNYCSNLTIGERKKYVNDTFAINPQNFTFSPLVKSEILKKCAKISGQIDLQRIMGTPKLLNNFTFQPENNSKLPAVECSESLIVSYQNHNSNSYVNSPSLEIDVSNDISMELSFSNNDDSYLANDSIHEYVMKTASLKFKDCNLKKHEHFNIFKLNSNKLTGYFQCKICPKVHDKFKTYKFSFSNYGSLNFMNIKVHLLTHFSTKESEPLKRGRRSSVLNQTQLELCDGSYSKNVIDLAANCFASCQLKTDDFAIYKDTSNVLVGYFICKICPNDSQKHLKFSFTNYQSLNFSNIKTHLTSHFKKKKPIENTRGRKRKCDMAELHN 1151 M+NASYFNAELIRALECFNLCGYSSYDQLYNFDEEDFENLERYIRNYCSNLTIGERKKYVNDTFAINPQ+FTFSPLVKSEILKKCAKISGQIDLQRIMGTPKLLNNFTFQPENNSKLPAVECSES IVSYQN NSNSYVNSPSLEIDVSNDISMELSFSNNDDSYLANDSIHEYVMKTASLKFKDCNLKKHEHFNIFKLNSNKLTGYFQCKICPKVHDKFKTYKFSFSNYGSLNFMNIKVHLLTHFSTKESEPLKRGRRSSVLNQTQLELCD SYSKNVIDLAANCFASCQLKTDDFAIYKDTSNVLVGYFICKICPNDSQKHLKFSFTNYQSLNFSNIKTHLTSHFKKKKPIENTRGRKRKCDMAELHN Sbjct: 1 MSNASYFNAELIRALECFNLCGYSSYDQLYNFDEEDFENLERYIRNYCSNLTIGERKKYVNDTFAINPQHFTFSPLVKSEILKKCAKISGQIDLQRIMGTPKLLNNFTFQPENNSKLPAVECSESFIVSYQNQNSNSYVNSPSLEIDVSNDISMELSFSNNDDSYLANDSIHEYVMKTASLKFKDCNLKKHEHFNIFKLNSNKLTGYFQCKICPKVHDKFKTYKFSFSNYGSLNFMNIKVHLLTHFSTKESEPLKRGRRSSVLNQTQLELCDDSYSKNVIDLAANCFASCQLKTDDFAIYKDTSNVLVGYFICKICPNDSQKHLKFSFTNYQSLNFSNIKTHLTSHFKKKKPIENTRGRKRKCDMAELHN 370
BLAST of SMED30015789 vs. Planmine SMEST
Match: SMESG000071865.1 (SMESG000071865.1) HSP 1 Score: 187.963 bits (476), Expect = 3.737e-57 Identity = 104/233 (44.64%), Postives = 141/233 (60.52%), Query Frame = 3 Query: 477 IDVSNDISMELSFSNNDDSYLANDSIHEYVMKTASLKFKDCNLKKHEHFNIFKLNSNKLTGYFQCKICPKVHDKFKTYKFSFSNYGSLNFMNIKVHLLTHFSTKESEPLKRGRRSS-------------VLNQTQLELCDGSYSKNVIDLAANCFASCQLKTD-DFAIYKDTSNVLVGYFICKICPNDSQ--KHLKFSFTNYQSLNFSNIKTHLTSHFKKKKPIENTRGRKRK 1127 ID S + S+ N LA+ SIH++++K A+LKF DC+LK +E FN+F + + G +QCKICPK +D ++ KF F+ YGS+ FMNI VHL HFS ES PL+RGRR + V+ T L LCD Y + V D+A F SC+LK + DF++YKD+ + L+GY++CK+C +Q KF FT Y SLNF+NI+ HL SHF RGRK K Sbjct: 8 IDFSENDSVNNKTDENSKISLASGSIHKFIVKRAALKFIDCHLKVNEDFNVFTNSFDTTLGIYQCKICPKHNDDYRICKFRFTKYGSIQFMNILVHLKKHFSLAESAPLRRGRRKTLFKTTKNTSKPEKVIEFTDLNLCDEKYHQYVSDMALEKFDSCRLKMNKDFSLYKDSEDPLLGYYVCKLCAETAQNRNQCKFRFTKYHSLNFTNIQFHLLSHFSMADSRRTKRGRKGK 240
BLAST of SMED30015789 vs. Planmine SMEST
Match: SMESG000003620.1 (SMESG000003620.1) HSP 1 Score: 84.3445 bits (207), Expect = 2.026e-18 Identity = 64/242 (26.45%), Postives = 106/242 (43.80%), Query Frame = 3 Query: 78 RALECFNLCGYSSYDQLYNFDEEDFENLERYIRNYCSNLTIGERKKYVNDTFAINPQNFTFSPLVKSEILKKCAKISGQIDLQRIMGTPKLLNNFTFQPENNSKLPAVECSESLIVSYQNHNSNSYVNSPSLEIDVSNDISMELSFSNNDDSY-LANDSIHEYVMKTASLKFKDCNLKKHEHFNIFKLNSNKLTGYFQCKICPKVHDKFKTYKFSFSNYGSLNFMNIKVHLLTHFSTKESEP 800 R C LCGY+S +F+ E + +E+Y+ N C L +R KY++ F P+ FT SP++KS ++ A I +I + NF E ++ P + I N + +P L S IS +N +SY L + E ++ ++KF++ L + F++F+ S +GY+ CK+ + +F+ N N+ HL HFS K P Sbjct: 15 RIGACLQLCGYNSTSDFQDFNSETVKEIEKYVSNVCCALDRDKRSKYIDPIFVDRPELFTISPVIKSRLI---AFIQQANSFGQICNMFGMSTNFECLDELTTENPLSDSKSLQIKEIPNEED---IKTPQLVNSFSTSISSNNEIEDNSESYTLCSKETMEELVAMQAIKFENFTLTVGDDFDLFQSTSCPNSGYYLCKMKSDCKSHKEKVNVTFNKENLPNLGNVNNHLRVHFSLKSQTP 250
BLAST of SMED30015789 vs. Planmine SMEST
Match: SMESG000002170.1 (SMESG000002170.1) HSP 1 Score: 83.5741 bits (205), Expect = 5.479e-18 Identity = 68/246 (27.64%), Postives = 115/246 (46.75%), Query Frame = 3 Query: 90 CFNLCGYSSYDQLYNFDEEDFENLERYIRNYCSNLTIGERKKYVNDTFAINPQNFTFSPLVKSEILKKCAKISGQIDLQRIMGTPKLLNNFTFQPENNSKLPAVECSESLI-VSYQNHNSNSYVNSPSLEIDVSNDISMELSFSNNDDSYLANDSIHEY---------VMKTASLKFKDCNLKKHEHFNIFKLNSNKL----TGYFQCKICPKVH--DKFKTYKFSFSNYGSLNFMNIKVHLLTHF 779 C +CGY+ +F+ E N+E+YI C + ERKKY+++ F NP+ F F P EILK A I +D+ + ++N ++ +P +E S+ I + Q+H S + SP I ++ IS E+S ++ S + + I E + ++ F +CNL+ + F + + + YF CK+C K+ +F + G++ F NIK+HL HF Sbjct: 20 CLAICGYTEMQHFASFNTESLANMEKYIGKACFLMNKEERKKYIDEIFIDNPKEFIFPPRCTDEILKIVASIKEYLDMNNVPMKNTNISNSDLD-DSLKLIPKIEKSDYFINLKQQSHLFKSII-SP---IMLNETISNEMSINSCCSSPVCEERIKEIDRLKLFYQSIKDRSNRHFLNCNLEPNIDFEVQLYKVDDVLYNSKAYFICKLCNKIRKGQSGVVVRFDITPSGNVIFRNIKIHLAKHF 260
BLAST of SMED30015789 vs. Planmine SMEST
Match: SMESG000002055.1 (SMESG000002055.1) HSP 1 Score: 79.337 bits (194), Expect = 1.878e-16 Identity = 66/249 (26.51%), Postives = 113/249 (45.38%), Query Frame = 3 Query: 78 RALECFNLCGYSSYDQLYNFDEEDFENLERYIRNYCSNLTIGERKKYVNDTFAINPQNFTFSPLVKSEILKKCAKISGQIDLQRIMGTPKLLNNFTFQPENNSKLPAVECSESLIVSYQNHNSNSYVNSPSL-EIDVSNDISMELSFSNNDDSYLANDSIHEYVMKTASLKFKDCNLKKHEHFNIFKLNSNKLTGYFQCKICPKVHDKFKTYKFSFSNYGSLNFMNIKVHLLTHFSTKESEPLKRGRRS 821 R C LCGY+S +F+ + + +E+Y+ N C L +R KY++ F P+ FT SP++KS ++ + + + ++ G P NF E ++ + S+SL + + + + SP L + S S NN D L + E ++ ++ F++ L + F++F+ S+ GYF CK+ + SF+ N NI HL HFS K P + +RS Sbjct: 15 RIGACLQLCGYNSTSDFQDFNSKTVKEIEKYVSNVCCALDRDKRSKYIDPIFVDRPELFTISPVIKSRLIAFIQQANSFGQICKMFGMP---TNFECLDELTTE-NTLNASKSLQIEEIPNEED--IKSPQLVNSSSISISSSNESECNNKDYTLCSKETMEELVAMQAINFENFTLTIGDDFDLFQSVSSPNLGYFLCKMKSDCKSHKEKVNVSFNKENLPNLSNINNHLRVHFSLKPQSPGQIRQRS 257 The following BLAST results are available for this feature:
BLAST of SMED30015789 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30015789 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30015789 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30015789 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30015789 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30015789 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30015789 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30015789 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 1
BLAST of SMED30015789 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30015789 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30015789 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30015789 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30015789 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30015789 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 5
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30015789 ID=SMED30015789|Name=SMED30015789|organism=Schmidtea mediterranea sexual|type=transcript|length=1199bpback to top protein sequence of SMED30015789-orf-1 >SMED30015789-orf-1 ID=SMED30015789-orf-1|Name=SMED30015789-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=371bp MNNASYFNAELIRALECFNLCGYSSYDQLYNFDEEDFENLERYIRNYCSNback to top Annotated Terms
The following terms have been associated with this transcript:
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