SMED30013584
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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., 2020SMED30013584 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 4
Alignments
SMED30013584 aligns in the following genomic locations:
Homology
BLAST of SMED30013584 vs. UniProt/SwissProt
Match: sp|P34257|TC3A_CAEEL (Transposable element Tc3 transposase OS=Caenorhabditis elegans OX=6239 GN=tc3a PE=1 SV=1) HSP 1 Score: 57.7658 bits (138), Expect = 1.260e-16 Identity = 28/66 (42.42%), Postives = 40/66 (60.61%), Query Frame = -3
Query: 56 SPDLTPMENL*GIIARRAYASSCQL*SQVELEMAI*ATWSTIESTILSNLIQSMENRIFEVIRLQG 253
SPDL P+ENL GI+ R YA + + L+ I W +I L +L++SME+R+ E+IR QG
Sbjct: 259 SPDLNPIENLWGILVRIVYAQNKTYPTVASLKQGILDAWKSIPDNQLKSLVRSMEDRLIEIIRTQG 324 HSP 2 Score: 50.8322 bits (120), Expect = 1.260e-16 Identity = 36/104 (34.62%), Postives = 53/104 (50.96%), Query Frame = -2
Query: 252 KKFNLDGQDGGC-----DLRCEPHFFAQSNFGGRSV-IWRV-RRFKQTDVYHCSLLLQK*IAQSISS-SLLPYLHRFRTVHYIFKQDNTAIHTSRGTKKWLAVQ 539
KKFNLDG DG C DLR EP F++ NFGG +V +W K+ ++ S + Q++ L YL + + F+QDN IH S T+ + ++
Sbjct: 146 KKFNLDGPDG-CRYYWRDLRKEPMVFSRRNFGGGTVMVWGAFTEKKKLEIQFVSSKMNSTDYQNVLELELSKYLRHYSRKDFRFQQDNATIHVSNSTRDYFKLK 248 HSP 3 Score: 64.3142 bits (155), Expect = 4.266e-10 Identity = 66/232 (28.45%), Postives = 101/232 (43.53%), Query Frame = -1
Query: 367 GTQLSEREKG*LTLL-LRKKVIRAIARELGPDHRVIHNYLKDSLGYGTKKRSR*KRKLPERAERAVAHDVANTAKSCKRIAHYLDLNVIKSTIWRSLSRNSNIARQIMKTIPRIFPRHIATRMEFGVKSSTLTGQK*ALFSDISYHIHXXXXXXXXXXXXXXXXXLTEKIQL-GRAG---WWM*FAMRTTLFRSK*LWR*IGD---MAREAF*ANRCLPLQFTSSKMNSTEY 1038
G+ LS+ E+ L ++ L + ++R++ I YLKD + YGT KR+ ++ L R ER V +N+ K+ + I + L L+ K TI + R+ I RQ ++ P + H R+EF K++ T +FSD +K L G G +W +F R G M AF + L +QF SSKMNST+Y
Sbjct: 4 GSALSDTERAQLDVMKLLNVSLHEMSRKISRSRHCIREYLKDPVSYGTSKRAPRRKALSVRDERNVIRAASNSCKTARDIRNELQLSASKRTILNVIKRSGVIVRQKLRPAPLLSADHKLKRLEFA-KNNMGTNWSKVVFSD------------------------EKKFNLDGPDGCRYYWRDLRKEPMVFSR----RNFGGGTVMVWGAFTEKKKLEIQFVSSKMNSTDY 206
BLAST of SMED30013584 vs. TrEMBL
Match: A0A016T0S7 (Uncharacterized protein OS=Ancylostoma ceylanicum OX=53326 GN=Acey_s0151.g2804 PE=4 SV=1) HSP 1 Score: 81.2629 bits (199), Expect = 2.758e-39 Identity = 52/142 (36.62%), Postives = 75/142 (52.82%), Query Frame = -1
Query: 616 GTQLSEREKG*LTLLLRKKVI-RAIARELGPDHRVIHNYLKDSLGYGTKKRSR*KRKLPERAERAVAHDVANTAKSCKRIAHYLDLNVIKSTIWRSLSRNSNIARQIMKTIPRIFPRHIATRMEFGVKSSTLTGQK*ALFSD 1038
GT+LS EK + L + RAI R++G H ++ YL++ GY KK + +R L ER + +N+ S +I L L V K+TIWR+L RN NI R+ MK PR+ H R+EF + + T +FSD
Sbjct: 4 GTRLSTEEKAQIRALSDAGLSSRAIGRQIGRTHCLVSTYLRNPDGYSKKKDTGRRRTLTAHDERQICRQASNSCSSLNQIRAQLRLPVSKTTIWRALHRNENIVRECMKKAPRLTSLHKVARLEFA-RRNMATDWSTIIFSD 144 HSP 2 Score: 72.7886 bits (177), Expect = 2.758e-39 Identity = 35/72 (48.61%), Postives = 45/72 (62.50%), Query Frame = -3
Query: 41 CSPDLTPMENL*GIIARRAYASSCQL*SQVELEMAI*ATWSTIESTILSNLIQSMENRIFEVIRLQGYYSDY 256
CSPDL PMENL GIIAR+ Y++ Q + +L+ A+ W +E L NL+ SM NR+FEV QG DY
Sbjct: 258 CSPDLNPMENLWGIIARKVYSNHRQFQTIDDLKTAVIEAWEDVEDDTLKNLVNSMPNRLFEVASRQGGPIDY 329 HSP 3 Score: 59.3066 bits (142), Expect = 2.758e-39 Identity = 39/101 (38.61%), Postives = 55/101 (54.46%), Query Frame = -2
Query: 258 KKFNLDGQDGGC----DLRCEPHFFAQSNFGGRS-VIWRVR-RFKQTDVYHCSLLLQK*IAQ-SISSSLLPYLHRFRTVHYIFKQDNTAIHTSRGTKKWLA 539
KKFNLDG DG DLR P F++ NFGG S ++W + ++ S + Q ++ LLP+L R + Y F+QDN A+H S+ TK WL+
Sbjct: 146 KKFNLDGPDGVKSYWRDLRKNPIVFSRRNFGGGSLMVWGAFCAASKLEIAFVSCRMDSAEYQGTLQRHLLPFLRGRRLLKYTFQQDNAAVHVSQSTKTWLS 246
BLAST of SMED30013584 vs. TrEMBL
Match: A0A1I7YKG6 (Uncharacterized protein OS=Steinernema glaseri OX=37863 PE=4 SV=1) HSP 1 Score: 82.0333 bits (201), Expect = 1.821e-34 Identity = 48/104 (46.15%), Postives = 60/104 (57.69%), Query Frame = -2
Query: 249 KKFNLDGQDGGC----DLRCEPHFFAQSNFGGRS-VIWR-VRRFKQTDVYHCSLLLQK*IAQSI-SSSLLPYLHRFRTVHYIFKQDNTAIHTSRGTKKWLAVQS 539
KKFNLDG DG DLR EP +F NFGG S +IW F +T V CS + Q + +LLPY RFR+ +IF+QDN AIH+SR T WL+ +
Sbjct: 148 KKFNLDGPDGAWHYWRDLRKEPKYFKTRNFGGGSLMIWAGFSVFGKTPVAFCSTKMNSLDYQEVLRMNLLPYFARFRSARHIFQQDNAAIHSSRSTNDWLSANN 251 HSP 2 Score: 77.7962 bits (190), Expect = 1.821e-34 Identity = 53/135 (39.26%), Postives = 77/135 (57.04%), Query Frame = -1
Query: 658 GTQLSEREKG*LTLLLRKKV-IRAIARELGPDHRVIHNYLKDSLGYGTKKRSR*KRKLPERAERAVAHDVANTAKSCKRIAHYLDLNVIKSTIWRSLSRNSNIARQIMKTIPRIFPRHIATR-------MEFGVK 1038
G +LSE E+G + +L + + IR IA ++G H+V+ NYL+D+ YG K RKL + ER V +N+ K+ I L+V STI R+L R+SNI RQ +K+ P + RH+A R M+FG K
Sbjct: 4 GKRLSEVEQGQIRVLHDEGLSIRKIALKIGRSHQVVGNYLRDTDNYGKKCSPGRPRKLDKTTERFVRRIASNSQKTACEIRDECGLSVNPSTILRTLHRSSNIVRQTLKSCPNLSLRHVAARKEIAEEWMDFGRK 138 HSP 3 Score: 36.965 bits (84), Expect = 1.821e-34 Identity = 18/43 (41.86%), Postives = 21/43 (48.84%), Query Frame = -3
Query: 128 CSPDLTPMENL*GIIARRAYASSCQL*SQVELEMAI*ATWSTI 256
CSPDL PMEN +I R Y + Q S EL I W +
Sbjct: 260 CSPDLNPMENAWALIVRDVYRAGRQYGSVAELRAEISKAWDRL 302
BLAST of SMED30013584 vs. TrEMBL
Match: A0A368FPB8 (Transposase (Fragment) OS=Ancylostoma caninum OX=29170 GN=ANCCAN_20258 PE=4 SV=1) HSP 1 Score: 74.3294 bits (181), Expect = 3.234e-33 Identity = 36/72 (50.00%), Postives = 47/72 (65.28%), Query Frame = -3
Query: 41 CSPDLTPMENL*GIIARRAYASSCQL*SQVELEMAI*ATWSTIESTILSNLIQSMENRIFEVIRLQGYYSDY 256
CSPDL PMENL GI+AR+ Y+++ Q S EL+ AI W +E L NL+ SM +R+FEV QG +DY
Sbjct: 214 CSPDLNPMENLWGILARKVYSNNRQFHSIEELKKAIIDAWEDVEDNALRNLVSSMPSRLFEVASKQGGSTDY 285 HSP 2 Score: 62.7734 bits (151), Expect = 3.234e-33 Identity = 37/97 (38.14%), Postives = 54/97 (55.67%), Query Frame = -1
Query: 616 YGTKKRSR*KRKLPERAERAVAHDVANTAKSCKRIAHYLDLNVIKSTIWRSLSRNSNIARQIMKTIPRIFPRHIATRMEFGVKSSTLTGQK*ALFSD 906
Y KK + +R L ER + +N+ S +I L+L + KST+WR+L R+ I R+IMK PR+ P H A R+EF V+ + T +FSD
Sbjct: 5 YNKKKDTGRRRTLTAHDERQICRRASNSCLSLNQIRADLELPISKSTVWRALPRSEYIVREIMKKAPRLTPLHKAARLEF-VRRNITTDWNTIIFSD 100 HSP 3 Score: 55.4546 bits (132), Expect = 3.234e-33 Identity = 39/100 (39.00%), Postives = 52/100 (52.00%), Query Frame = -2
Query: 261 KKFNLDGQDGGC----DLRCEPHFFAQSNFGGRS-VIWRVR-RFKQTDVYHCSLLLQK*IAQSI-SSSLLPYLHRFRTVHYIFKQDNTAIHTSRGTKKWL 539
KKFNLDG DG DLR P F++ NFGG S ++W + +V S + Q + LLP+L R Y F+QDN A+H S+ T+ WL
Sbjct: 102 KKFNLDGPDGVKSYWRDLRKNPITFSRRNFGGGSLMVWGAFCDVAKLEVAFVSCRIDSTEYQGVLQRHLLPFLRGRRLHKYTFQQDNAAVHASQSTRTWL 201
BLAST of SMED30013584 vs. TrEMBL
Match: A0A016UGW8 (Uncharacterized protein OS=Ancylostoma ceylanicum OX=53326 GN=Acey_s0040.g191 PE=4 SV=1) HSP 1 Score: 65.0846 bits (157), Expect = 7.475e-32 Identity = 42/105 (40.00%), Postives = 56/105 (53.33%), Query Frame = -2
Query: 252 KKFNLDGQDGGC----DLRCEPHFFAQSNFGGRS-VIWRVRRFKQTDVYHCSL----LLQK*IAQSISSSLLPYLHRFRTVHYIFKQDNTAIHTSRGTKKWLAVQ 539
KKFNLDG DG DLR EP FF++ NFGG S ++W V + + Q +S LLP+L +++F QDN AIH+SR T+ WL+ Q
Sbjct: 146 KKFNLDGPDGWRSYWRDLREEPLFFSRRNFGGGSCMVWGA--ISSVGVLSMAFVSCRMNSNDYQQVLSDHLLPFLRLHPGHNFVFMQDNAAIHSSRSTRTWLSSQ 248 HSP 2 Score: 63.1586 bits (152), Expect = 7.475e-32 Identity = 44/131 (33.59%), Postives = 64/131 (48.85%), Query Frame = -1
Query: 649 GTQLSEREKG*LTLLLR-KKVIRAIARELGPDHRVIHNYLKDSLGYGTKKRSR*KRKLPERAERAVAHDVANTAKSCKRIAHYLDLNVIKSTIWRSLSRNSNIARQIMKTIPRIFPRHIATRMEFGVKSST 1038
G++LS EK + L R R IA E+ I NYLKD Y KK R + + R + +N+ S ++ L L+ TIWR+L + I RQ+MKT+PR+ H A R+ F ++ T
Sbjct: 4 GSRLSAEEKAQVDALHRIGYSCRRIATEICRSANCISNYLKDPTSYNDKKMKGRPRIISDATSRRIKRFFSNSKVSLRQAKAELGLSASCMTIWRTLKGSKEITRQVMKTVPRLTQAHKAARLRFAQENMT 134 HSP 3 Score: 59.6918 bits (143), Expect = 7.475e-32 Identity = 32/74 (43.24%), Postives = 45/74 (60.81%), Query Frame = -3
Query: 56 ELRNGSQCSPDLTPMENL*GIIARRAYASSCQL*SQVELEMAI*ATWSTIESTILSNLIQSMENRIFEVIRLQG 277
E+ + CSPDL +EN+ G+I RR YA++ Q S EL+ AI W+ +E ++ NL SM RIFEV +G
Sbjct: 251 EILDWPACSPDLNSIENVWGVIVRRIYANNRQYSSVEELKKAILEAWNNLEPNLIRNLYASMPKRIFEVAVNKG 324
BLAST of SMED30013584 vs. TrEMBL
Match: A0A368H4C5 (Transposase OS=Ancylostoma caninum OX=29170 GN=ANCCAN_02412 PE=4 SV=1) HSP 1 Score: 72.4034 bits (176), Expect = 1.201e-31 Identity = 43/120 (35.83%), Postives = 65/120 (54.17%), Query Frame = -1
Query: 616 RAIARELGPDHRVIHNYLKDSLGYGTKKRSR*KRKLPERAERAVAHDVANTAKSCKRIAHYLDLNVIKSTIWRSLSRNSNIARQIMKTIPRIFPRHIATRMEFGVKSSTLTGQK*ALFSD 975
RAIA +LG H ++ YL++ Y K + + L R + +N+ S ++ L LNV K TIWRS+ RN+NI R+IM+ PR+ P+H R+ F +S+ T +FSD
Sbjct: 27 RAIAAQLGRSHGCVNKYLRNPSEYNKKLNNGRPKVLTANDSRRIGRLASNSTLSIAQMRAQLGLNVSKMTIWRSVRRNTNITREIMRKAPRLTPQHKKARLLFA-RSNMTTQWDKVIFSD 145 HSP 2 Score: 58.151 bits (139), Expect = 1.201e-31 Identity = 37/102 (36.27%), Postives = 54/102 (52.94%), Query Frame = -2
Query: 261 KKFNLDGQDG----GCDLRCEPHFFAQSNFGGRSVI-WRVRRFKQTDVYHCSLLLQK*IA----QSISSSLLPYLHRFRTVHYIFKQDNTAIHTSRGTKKWL 539
KKFNLDG DG DLR EP F++ NFGG S++ W F + + + + + + + + LLP+L R +F+QDN A+H S T+ WL
Sbjct: 147 KKFNLDGPDGYRHYWRDLRKEPIMFSRRNFGGGSLMTWAA--FGSSGKLELAFVSNRMDSSEYQEVLRTHLLPFLRGARRRSLVFQQDNAAVHVSHSTRSWL 246 HSP 3 Score: 56.9954 bits (136), Expect = 1.201e-31 Identity = 28/64 (43.75%), Postives = 39/64 (60.94%), Query Frame = -3
Query: 65 CSPDLTPMENL*GIIARRAYASSCQL*SQVELEMAI*ATWSTIESTILSNLIQSMENRIFEVIR 256
CSPD +EN+ GII R+ Y ++ Q + L+ AI W I+ L+ L+ SM NRIFE+IR
Sbjct: 259 CSPDCNVVENMWGIIVRQVYRNNKQYNTVESLKTAILEAWDQIDDATLAKLVGSMPNRIFEIIR 322 The following BLAST results are available for this feature:
BLAST of SMED30013584 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30013584 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30013584 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30013584 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30013584 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30013584 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30013584 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 1
BLAST of SMED30013584 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30013584 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30013584 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30013584 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30013584 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30013584 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30013584 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 0
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30013584 ID=SMED30013584|Name=SMED30013584|organism=Schmidtea mediterranea sexual|type=transcript|length=1245bpback to top Annotated Terms
The following terms have been associated with this transcript:
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