SMED30001112
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., 2020SMED30001112 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 11
Alignments
SMED30001112 aligns in the following genomic locations:
Homology
BLAST of SMED30001112 vs. TrEMBL
Match: A0A267EGG4 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig034472g2 PE=4 SV=1) HSP 1 Score: 75.0998 bits (183), Expect = 2.771e-11 Identity = 79/270 (29.26%), Postives = 123/270 (45.56%), Query Frame = 2 Query: 254 MKRAKLPVINRSLNSGPVWY---QNNWTDFP---TSEQRSEYIGHKLTHSVDYSPRFTYSISNIPFNDFTEYRDNYPLNKRNYSQNFLRRRDQIQLSKIPMESTSIYNNEFKSKDSVKAMPVKPKSSQLDFVFNDKENKQTVHSSLYKSDFKKWEKENSKMVSFKENVFDNQNA-----------------STDYQENFQKPP-PSRLVMPQPIYKKPIVPFASDTSYNITFVKHPYSKESLMLPTKSNLSVENKPFVGQSLYKSDYVEK 991 M+ KLP I+RS PVW + T+F +S R +++ H L D P+ + +SN+PF +E R + + + RR Q+ LS ++SIY+ EF +K+ KPK+ D + + + SS+YK D+ + E N M + +Q A +TDY NF P +R ++P P YK P + DTSY+ FV ++ + M ++ PFVGQS+YK D+V K Sbjct: 1 MQSVKLPTISRS-QVRPVWLPEGADQLTEFQPQMSSIFRQDFVRHSLPKMPDLRPKISAYVSNLPFAATSEQRAAF-QGDQQPRRRVRVRRGQLALSTEAFNNSSIYSQEFVAKERGVTENYKPKT---DASLSQEPFQ---ASSVYKLDYPRHET-NPSMSETVAKLQQSQAARPQQYQSADPKLRCLDGTTDYGGNFLDPQVAARRLIP-PGYKPPTEKMSGDTSYSKVFVPFAGAQPAPMFKPQTVAFASGAPFVGQSVYKDDFVPK 260
BLAST of SMED30001112 vs. TrEMBL
Match: A0A267GXT6 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig034472g1 PE=4 SV=1) HSP 1 Score: 73.9442 bits (180), Expect = 7.396e-11 Identity = 79/270 (29.26%), Postives = 123/270 (45.56%), Query Frame = 2 Query: 254 MKRAKLPVINRSLNSGPVWY---QNNWTDFP---TSEQRSEYIGHKLTHSVDYSPRFTYSISNIPFNDFTEYRDNYPLNKRNYSQNFLRRRDQIQLSKIPMESTSIYNNEFKSKDSVKAMPVKPKSSQLDFVFNDKENKQTVHSSLYKSDFKKWEKENSKMVSFKENVFDNQNA-----------------STDYQENFQKPP-PSRLVMPQPIYKKPIVPFASDTSYNITFVKHPYSKESLMLPTKSNLSVENKPFVGQSLYKSDYVEK 991 M+ KLP I+RS PVW + T+F +S R +++ H L D P+ + +SN+PF +E R + + + RR Q+ LS ++SIY+ EF +K+ KPK+ D + + + SS+YK D+ + E N M + +Q A +TDY NF P +R ++P P YK P + DTSY+ FV ++ + M ++ PFVGQS+YK D+V K Sbjct: 1 MQSVKLPTISRS-QVRPVWLPEGADQLTEFQPQMSSIFRQDFVRHSLPKMPDLRPKVSAYVSNLPFAATSEQRAAF-QGDQPPRRRVRVRRGQLALSTEAFNNSSIYSQEFVAKERGVTENYKPKT---DASLSQEPFQ---ASSVYKLDYPRHET-NPSMSETVAKLQQSQAARPQQYQSADPKLRCLDGTTDYGGNFLDPQVAARRLIP-PGYKPPTEKMSGDTSYSKVFVPFAGAQPAPMFKPQTVAFASGAPFVGQSVYKDDFVPK 260
BLAST of SMED30001112 vs. TrEMBL
Match: A0A1I8HEK5 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig034472g3 PE=4 SV=1) HSP 1 Score: 72.7886 bits (177), Expect = 1.503e-10 Identity = 78/270 (28.89%), Postives = 122/270 (45.19%), Query Frame = 2 Query: 254 MKRAKLPVINRSLNSGPVWY---QNNWTDFP---TSEQRSEYIGHKLTHSVDYSPRFTYSISNIPFNDFTEYRDNYPLNKRNYSQNFLRRRDQIQLSKIPMESTSIYNNEFKSKDSVKAMPVKPKSSQLDFVFNDKENKQTVHSSLYKSDFKKWEKENSKMVSFKENVFDNQNA-----------------STDYQENFQKPP-PSRLVMPQPIYKKPIVPFASDTSYNITFVKHPYSKESLMLPTKSNLSVENKPFVGQSLYKSDYVEK 991 M+ KLP I+RS PVW + T+F +S R +++ H L D P+ + +SN+PF +E R + + + RR Q+ LS ++SIY+ EF +K+ KPK+ D + + + SS+YK D+ + E N M + +Q A +TDY NF P +R ++P P YK P + DT Y+ FV ++ + M ++ PFVGQS+YK D+V K Sbjct: 1 MQSVKLPTISRS-QVRPVWLPEGADQLTEFQPQMSSIFRQDFVRHSLPKMPDLRPKVSAYVSNLPFAATSEQRAAF-QGDQPPRRRVRVRRGQLALSTEAFNNSSIYSQEFVAKERGVTENYKPKT---DASLSQEPFQ---ASSVYKLDYPRHET-NPSMSETVAKLQQSQAARPQQYQSADPKLRCLDGTTDYGGNFLDPQVAARRLIP-PGYKPPTEKMSGDTCYSKVFVPFAGAQPAPMFKPQTVAFASGAPFVGQSVYKDDFVPK 260
BLAST of SMED30001112 vs. TrEMBL
Match: A0A3M7RFF3 (Stabilizer of axonemal microtubules 2 OS=Brachionus plicatilis OX=10195 GN=BpHYR1_026727 PE=4 SV=1) HSP 1 Score: 71.633 bits (174), Expect = 8.420e-10 Identity = 60/194 (30.93%), Postives = 97/194 (50.00%), Query Frame = 2 Query: 419 SNIPFNDFTEYRDNYPLNKRNYSQNFLRRRDQIQLSKIPMESTSIYNNEFKSKDSVKAMPVKPKSS--QLDFVFNDKENKQTVHSSLYKSDFKKWE-KEN-SKMVSFKENVFDNQNASTDYQENFQKPPPSRLVMPQPIYKKPI-VPFASDTSYNITFVKHPYSKESLMLPTKSNLSVENKPFVGQSLYKSDYV 985 S PFND T YR++Y K + F R RD+ Q +KIP+++ + +F +KD+ KA KP++ + + F+D + +K+DFKKWE K N +K + + + ST+Y F + P + + +P +K + F DT+Y F K P + + L ++ N PF G S YK Y+ Sbjct: 195 STDPFNDRTGYREDY--VKHDLPTKFSRPRDEYQPNKIPLDNMTTMRRDFTAKDAEKARSFKPENGGYRSEAPFDD--------DTTHKNDFKKWEVKPNFAKKDNEWKPPLGEMDLSTNYNSEFTQKPAQKAMAIRPASRKKVEGKFEGDTTYGQDFRKWPGDRRTP-LKNQNEYQTPNVPFDGTSTYKGHYL 377
BLAST of SMED30001112 vs. TrEMBL
Match: A0A1I8ISG6 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1) HSP 1 Score: 67.781 bits (164), Expect = 2.586e-8 Identity = 77/280 (27.50%), Postives = 125/280 (44.64%), Query Frame = 2 Query: 287 SLNSG--PVWY---QNNWTDFP---TSEQRSEYIGHKLTHSVDYSPRFTYSISNIPFNDFTEYRDNYPLNKRNYSQNFLRRRDQIQLSKIPMESTSIYNNEFKSKDSVKAMPVKPKSSQLDFVFNDKENKQTVHSSLYKSDFKKWEKENSKMVSFKENVFDNQNA-----------------STDYQENFQKPP-PSRLVMPQPIYKKPIVPFASDTSYNITFVKHPYSKESLMLPTKSNLSVENKPFVGQSLYKSDYVEKERDNGNSELNIYQNPSSFL 1048 +L+ G PVW + T+F +S R +++ H L D P+ + +SN+PF +E R + + + RR Q+ LS ++SIY+ EF +K+ KPK+ D + + + SS+YK D+ + E N M + +Q A +TDY NF P +R ++P P YK P + DTSY+ FV ++ + M ++ PFVGQS+YK D+V K S N+ +N + + Sbjct: 394 TLHGGVRPVWLPEGADQLTEFQPQMSSIFRQDFVRHSLPKMPDLRPKVSAYVSNLPFAATSEQRAAF-QGDQPPRRRVRVRRGQLALSTEAFNNSSIYSQEFVAKERGVTENYKPKT---DASLSQEPFQA---SSVYKLDYPRHET-NPSMSETVAKLQQSQAARPQQYQSADPKLRCLDGTTDYGGNFLDPQVAARRLIP-PGYKPPTEKMSGDTSYSKVFVPFAGAQPAPMFKPQTVAFASGAPFVGQSVYKDDFVPKPLR--KSSANVLENRTGIM 662
BLAST of SMED30001112 vs. Planmine SMEST
Match: SMESG000061228.1 (SMESG000061228.1) HSP 1 Score: 700.664 bits (1807), Expect = 0.000e+0 Identity = 344/345 (99.71%), Postives = 344/345 (99.71%), Query Frame = 2 Query: 95 MVTIQQPDGCIGNASMPLLLFITSISLKFIFYTSSSRRILFLFGLLNLQSIKTMKRAKLPVINRSLNSGPVWYQNNWTDFPTSEQRSEYIGHKLTHSVDYSPRFTYSISNIPFNDFTEYRDNYPLNKRNYSQNFLRRRDQIQLSKIPMESTSIYNNEFKSKDSVKAMPVKPKSSQLDFVFNDKENKQTVHSSLYKSDFKKWEKENSKMVSFKENVFDNQNASTDYQENFQKPPPSRLVMPQPIYKKPIVPFASDTSYNITFVKHPYSKESLMLPTKSNLSVENKPFVGQSLYKSDYVEKERDNGNSELNIYQNPSSFLQTISHGNWYDKYPSQEFKEFRNTLFYQ 1129 MVTIQQPDGCIGNASMPLLLFITSISLKFIFYTSSSRRILFLFGLLNLQSIKTMKRAKLPVINRSLNSGPVWYQNNWTDFPTSEQRSEYIGHKLTHSVDYS RFTYSISNIPFNDFTEYRDNYPLNKRNYSQNFLRRRDQIQLSKIPMESTSIYNNEFKSKDSVKAMPVKPKSSQLDFVFNDKENKQTVHSSLYKSDFKKWEKENSKMVSFKENVFDNQNASTDYQENFQKPPPSRLVMPQPIYKKPIVPFASDTSYNITFVKHPYSKESLMLPTKSNLSVENKPFVGQSLYKSDYVEKERDNGNSELNIYQNPSSFLQTISHGNWYDKYPSQEFKEFRNTLFYQ Sbjct: 1 MVTIQQPDGCIGNASMPLLLFITSISLKFIFYTSSSRRILFLFGLLNLQSIKTMKRAKLPVINRSLNSGPVWYQNNWTDFPTSEQRSEYIGHKLTHSVDYSTRFTYSISNIPFNDFTEYRDNYPLNKRNYSQNFLRRRDQIQLSKIPMESTSIYNNEFKSKDSVKAMPVKPKSSQLDFVFNDKENKQTVHSSLYKSDFKKWEKENSKMVSFKENVFDNQNASTDYQENFQKPPPSRLVMPQPIYKKPIVPFASDTSYNITFVKHPYSKESLMLPTKSNLSVENKPFVGQSLYKSDYVEKERDNGNSELNIYQNPSSFLQTISHGNWYDKYPSQEFKEFRNTLFYQ 345
BLAST of SMED30001112 vs. Planmine SMEST
Match: SMESG000009389.1 (SMESG000009389.1) HSP 1 Score: 48.1358 bits (113), Expect = 8.006e-6 Identity = 57/268 (21.27%), Postives = 102/268 (38.06%), Query Frame = 2 Query: 353 SEYIGHKLTHSVDYSPRFTYSISNIPFNDFTEYRDNY---PLNKRNYSQNFLRRRDQIQLSK--IPMESTSIYNNEFKSKDSVKAMPVKPKSSQLDFVFNDKENKQTVHSSLYKSDFKKWE-KENSKMVSFKENVFDNQ----------------------------------NASTDYQENF------QKPPPSRLVMPQPIYKKPIVPFASDTSYNITFVKHPYSKESLMLPTKSNLSVENKPFVGQSLYKSDYVEKERDNGNSEL 1018 S+Y+G+K P + S PF D T+YR +Y PL + L+ +D+ +K +P + + + +F K+ KA KP L F Q+ + + D+K WE K S ++ + D +TDY++++ Q+P V P Y P VPF +++++ F++HP P + + F ++Y+ +Y +K D + L Sbjct: 176 SDYVGYKAAPQASCKPDVSALHSEAPFEDMTDYRQSYVKHPLEGK------LKPKDRAMWAKSAVPFDGLTTFKRDFTPKEGGKAGSCKP----LAQAFQSGAPLQS--DTTNRIDYKPWEVKRPSHHLADPYKIPDGDMDMHTTYLRDYPEHPYMKSLAIKPKARGRSLEPFQGTTDYRDSYKKWNMGQRP----HVGPNLQYHPPSVPFEGESTHHAHFIQHPLDPRKSCKPDPRAYANSGE-FDDGTIYRMEYTKKHVDPCPAAL 426 The following BLAST results are available for this feature:
BLAST of SMED30001112 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30001112 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30001112 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30001112 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30001112 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30001112 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30001112 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30001112 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30001112 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30001112 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30001112 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30001112 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30001112 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30001112 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 2
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30001112 ID=SMED30001112|Name=SMED30001112|organism=Schmidtea mediterranea sexual|type=transcript|length=1217bpback to top protein sequence of SMED30001112-orf-1 >SMED30001112-orf-1 ID=SMED30001112-orf-1|Name=SMED30001112-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=347bp MVTIQQPDGCIGNASMPLLLFITSISLKFIFYTSSSRRILFLFGLLNLQSback 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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