SMED30005712
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., 2020SMED30005712 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 5
Alignments
SMED30005712 aligns in the following genomic locations:
Homology
BLAST of SMED30005712 vs. Planmine SMEST
Match: SMESG000044394.1 (SMESG000044394.1) HSP 1 Score: 77.411 bits (189), Expect = 1.324e-14 Identity = 54/191 (28.27%), Postives = 103/191 (53.93%), Query Frame = 1 Query: 1147 TFSLIFHISNLFIYTCGIICLCLKMQDIKKWKKVMNISVESNLFDRFFIWSGFLGQLLICTRDLDSSIYYMHESTN-KNRHPFYLLIIVWPLSFXXXXXXXXXAIVIELCLDRKWRLNKKEEILSRKLSPCFILISVNLAGFIIGIYKDFCLLPN-GNKNVMERDIFSMYMTFFPQSMIMIQRLHAVVFFM 1713 T+S I I +F+ GI+ ++++++K WKK+ N+ + L DR IW G +G+ + +LD +I E+ K + FYL+ ++ Q + Q I++E+ +DR+W+L + L++K+ P ILI +N+ ++G+YK F + N+ +M + S + +Q LHA+++F+ Sbjct: 316 TYSAIM-IIGIFVSLVGILSCYVQIREMKNWKKLKNLDFKHQLIDRIIIWLGLMGKTIGVLSNLDYNIQGPPETLKIKIMYSFYLV-----YEIAVLFQTISQTILLEIAIDREWKLPSRPS-LAKKICPHLILIGINIDHIVLGLYKCFLMFKEYRNQTLMMYQVTS---NIIGGCLSFLQSLHAIIYFI 496
BLAST of SMED30005712 vs. Planmine SMEST
Match: SMESG000002129.1 (SMESG000002129.1) HSP 1 Score: 75.0998 bits (183), Expect = 6.095e-14 Identity = 67/252 (26.59%), Postives = 120/252 (47.62%), Query Frame = 1 Query: 1003 DLNPPSGPQDEKIKINWFSLTITILNLFLSVLPFSYYVFQHGMHY------VYATFSLI-FHISNLFIYTCGIICLCLKMQDIKKWKKVMNISVESNLFDRFFIWSGFLGQLLICTRDLDSSIYYMHESTNKNR--------HPFYLLIIVWPLSFXXXXXXXXXAIVIELCLDRKWRLNKKEEILSRKLSPCFILISVNLAGFIIGIYKDFCLLPNGNKNVMERDIFSMYMTFFPQSMIMIQRLHAVVFFM 1713 L P S Q KI F +TI L L + ++PF + G + +Y T +I IS L I+ C C++++++K W+K+ N++ + + DR FIW G LG+ T S + Y E + + + FY ++I+ F Q +++E+ ++R W+ L+ KL P F+LI +N+ I+ +YK F + K+ ++ I+ + S+ +Q LHA ++F+ Sbjct: 266 SLKPRSSSQSIN-KITVFPITIMGLILLVGLIPFPMILSIDGDYGFIQNKGIYITILVIGTSISLLGIFGC-----CVQIKEMKNWRKIPNLNFKHQILDRIFIWLGMLGK----TLGFLSYLGYYSEISRETSSISILYLFYLFYEIVILLQTVF--------QTVLLEIAIERDWK-KPARLTLAGKLCPSFMLIGININNLILALYKSFLMFKELEKSPVK--IYHVASMTIGGSLSFVQTLHATLYFI 496
BLAST of SMED30005712 vs. Planmine SMEST
Match: SMESG000044396.1 (SMESG000044396.1) HSP 1 Score: 60.4622 bits (145), Expect = 2.864e-9 Identity = 51/182 (28.02%), Postives = 92/182 (50.55%), Query Frame = 1 Query: 1147 TFSLIFHISNLFIYTCGIICLCLKMQDIKKWKKVMNISVESNLFDRFFIWSGFLGQLLICTRDLDSSIYYMHESTN-KNRHPFYLLIIVWPLSFXXXXXXXXXAIVIELCLDRKWRLNKKEEILSRKLSPCFILISVNLAGFIIGIYKDFCLLPNGNKNVMERDIFSMYMTFFPQSMIMIQR 1689 T+S I I +F+ GI+ ++++++K K+ N+ + L DR IW G +G+ + LD +I E+ K + FYL+ + L Q + Q I++E+ +DR+W+L + L+ K+ P ILI +N+ ++G+YK C L M+ + Q+++M QR Sbjct: 316 TYSAIM-IIGIFVSLVGILSCYVQIREMKNRIKLKNLDFKHQLIDRIIIWLGLMGKTIGVLSYLDYNIQGPPETLKLKIMYSFYLVYEIAVL-----FQTISQTILLEIAIDREWKLPSRPS-LANKICPHLILIGINIDHIVLGLYK--CFL--------------MFKEYRNQTLMMYQR 474
BLAST of SMED30005712 vs. Planmine SMEST
Match: SMESG000079760.1 (SMESG000079760.1) HSP 1 Score: 55.4546 bits (132), Expect = 9.687e-8 Identity = 120/496 (24.19%), Postives = 211/496 (42.54%), Query Frame = 1 Query: 310 LKHYIHELIESLFKIIILIYFVLGIL--FVVTRSAELMNPLNEEMEVYLVIFYCICFCDSFTFILTVVSRLFNRKCFGSPLTEYQFLVFFLIILPLAFFTGINMIINNIL--SCQKKKNW-----FYVEGFLFITA---LIINSSNIKEVGVSWLPRIVDKFNKSLLVTGCLTTYTFNLFIRHTYAFREIIQRYFDVHMQGCNETYPETYSSLWRVNTNIFCQASFGFMIFTVGFII-LLPYQI---DLNPPSGPQDEK---IKINWFSLTITILNLFLSV--LPFSYYVFQHGMHYVYATFSLIFHISNLFIYTCGIICLCLKMQDIKKWKKVMNISVESN--LFDRFFIWSGFLGQLLICTRDLDSSIYYMHESTNKNRHPFYLLIIVWPLSFXXXXXXXXXAIVIELCLDRKWRLNKKEEILSRKLSPCFILISVNLAGFIIGIYKDFCLLPNGNK---NVMERDIFSMYMTFFPQSMIMIQRLHAVVFFMNF 1719 L+ + ++L E+ K ++Y ++GI F + S EL E V + C L + ++ NR + + ++ + II+PL I +I+ + S +K +N V F+F+ + L+IN ++KE + +V+K L + G + F L F+ + +Y++V P S +++ +F FM ++G++I L QI D N Q+ KI+ S+ I I+ + L +P +Y + + ++F IY G+I + + +++ W+K +E+N + D+F +W G GQ++ I M +S N+N +I+ S L++Q+ LQ IV+ L RK + E + K+ P L+ +NL +I IY L P N M D+F + F +I RLHA VFF F Sbjct: 12 LEKFKNDLKEAGLKFSCILYLIIGITASFAILTS-ELEKNFRETRST--VFISLLIVCQFMNIALIIYNKYLNRTYGEVVILVKKHILLYFIIIPLMAIVTIYLIVQFYIYNSSKKDENQKVMIALSVSQFIFLISTIFLMINQGSLKETETTSSKILVNKSTVILTIIGLSVSIVFYLTKVELEIFKGLTTKYYNVTFANS----PNITDSFLKIDEYLF-PTHIVFMTMSIGYLIGSLQNQIMNSDNNAERNIQNSDNLNFKISPVSIIIGIVLIVLPTITMPLTYLKNYNAL--------IVFSSCATVIYIVGMILSVIYIHEMRNWEK----EIENNKYILDKFLLWLGCFGQIVFAIVQ----ISMMVQSDNRNGTT----VIMCICSIFLIIQISLQNIVVNLIASRKIQRPSNESLFG-KVCPPVGLLGLNLGCLLITIY----LSPLSNVFSFGDMSVDLFHFGLHIFAICFTLIHRLHATVFFAIF 474
BLAST of SMED30005712 vs. Planmine SMEST
Match: SMESG000079760.1 (SMESG000079760.1) HSP 1 Score: 51.6026 bits (122), Expect = 1.308e-6 Identity = 114/496 (22.98%), Postives = 200/496 (40.32%), Query Frame = 1 Query: 310 LKHYIHELIESLFKIIILIYFVLGIL--FVVTRSAELMNPLNEEMEVYLVIFYCICFCDSFTFILTVVSRLFNRKCFGSPLTEYQFLVFFLIILPLAFFTGINMIINNIL--SCQKKKNW-----FYVEGFLFITA---LIINSSNIKEVGVSWLPRIVDKFNKSLLVTGCLTTYTFNLFIRHTYAFREIIQRYFDVHMQGCNETYPETYSSLWRVNTNIFCQASFGFMIFTVGFII-LLPYQI---DLNPPSGPQDEK---IKINWFSLTITILNLFLSV--LPFSYYVFQHGMHYVYATFSLIFHISNLFIYTCGIICLCLKMQDIKKWKKVMNISVESN--LFDRFFIWSGFLGQLLICTRDLDSSIYYMHESTNKNRHPFYLLIIVWPLSFXXXXXXXXXAIVIELCLDRKWRLNKKEEILSRKLSPCFILISVNLAGFIIGIYKDFCLLPNGNK---NVMERDIFSMYMTFFPQSMIMIQRLHAVVFFMNF 1719 L+ + ++L E+ K ++Y ++GI F + S EL E V + C L + ++ NR + + ++ + II+PL I +I+ + S +K +N V F+F+ + L+IN ++KE + +V+K L + G + F L F+ + +Y++V P S +++ +F FM ++G++I L QI D N Q+ KI+ S+ I I+ + L +P +Y + + ++F IY G+I + + +++ W+K +E+N + D+F +W G GQ++ I M +S N+N IV+ L RK + E + K+ P L+ +NL +I IY L P N M D+F + F +I RLHA VFF F Sbjct: 12 LEKFKNDLKEAGLKFSCILYLIIGITASFAILTS-ELEKNFRETRST--VFISLLIVCQFMNIALIIYNKYLNRTYGEVVILVKKHILLYFIIIPLMAIVTIYLIVQFYIYNSSKKDENQKVMIALSVSQFIFLISTIFLMINQGSLKETETTSSKILVNKSTVILTIIGLSVSIVFYLTKVELEIFKGLTTKYYNVTFANS----PNITDSFLKIDEYLF-PTHIVFMTMSIGYLIGSLQNQIMNSDNNAERNIQNSDNLNFKISPVSIIIGIVLIVLPTITMPLTYLKNYNAL--------IVFSSCATVIYIVGMILSVIYIHEMRNWEK----EIENNKYILDKFLLWLGCFGQIVFAIVQ----ISMMVQSDNRNG---------------------TTNIVVNLIASRKIQRPSNESLFG-KVCPPVGLLGLNLGCLLITIY----LSPLSNVFSFGDMSVDLFHFGLHIFAICFTLIHRLHATVFFAIF 457 The following BLAST results are available for this feature:
BLAST of SMED30005712 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30005712 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30005712 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30005712 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30005712 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30005712 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30005712 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30005712 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30005712 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30005712 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30005712 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30005712 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30005712 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30005712 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 >SMED30005712 ID=SMED30005712|Name=SMED30005712|organism=Schmidtea mediterranea sexual|type=transcript|length=2009bpback to top protein sequence of SMED30005712-orf-1 >SMED30005712-orf-1 ID=SMED30005712-orf-1|Name=SMED30005712-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=535bp MNNDMENLLHNEELESNDYMTADSTMELHDVIEENVHYYSNVNPELPSLKback 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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