SMED30014618
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., 2020SMED30014618 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 18Note: Hover over icons to view figure legend
Alignments
SMED30014618 aligns in the following genomic locations:
Homology
BLAST of SMED30014618 vs. Planmine SMEST
Match: SMESG000079382.1 (SMESG000079382.1) HSP 1 Score: 327.02 bits (837), Expect = 1.615e-111 Identity = 181/267 (67.79%), Postives = 200/267 (74.91%), Query Frame = 3 Query: 201 MTKIYHCIKDEKMEDFRNKDPANGYAYHVTNIDCCGRTELDMKKINWIRNRVDERVERIKSILSGESQPNQEEE--------LTDQLAAINLNE--ELRPFEIRNSTYHPAVEGVEGVFMNTTLYSHQKDQKSVSKDIPLYLPPTTVYPSG------DHYYQRISIKFDEISAKYPKCKFWCEKTFKNTTQRHYICYNSDMEIEKFKKPNSASGGIIFTEDIKD--WNELGIEKEGGATKDILPRLQNDYNLKKYFNNIVLLGGIDI 947 MTKIYHCIKD+ MEDFRNKDPANGYAYHVTNIDCCGRT+L+MKKINWIRNRVDERVE IKSILSGESQPNQ + L DQLAAINLNE ELRPFEIR S YHPAVEGVEGVFMNTTLY +LP TVYP G DHYYQRISIKFD+IS KYP+CKFWC K QRHYICY S+ +I+ F K SA+ GI F+ED +D +GI+KE GATKDILP LQNDY ++YFNN+VLLGGI+I Sbjct: 1 MTKIYHCIKDKNMEDFRNKDPANGYAYHVTNIDCCGRTKLNMKKINWIRNRVDERVESIKSILSGESQPNQPNQPNQQDMTGLADQLAAINLNEDLELRPFEIRKSNYHPAVEGVEGVFMNTTLYDG-------------HLPDWTVYPFGKPQCQVDHYYQRISIKFDKISEKYPQCKFWCIK----DKQRHYICYKSESKIKNFNKTKSATAGIKFSEDFQDSELEVMGIKKE-GATKDILPYLQNDYKKEEYFNNLVLLGGIEI 249
BLAST of SMED30014618 vs. Planmine SMEST
Match: SMESG000079382.1 (SMESG000079382.1) HSP 1 Score: 306.22 bits (783), Expect = 1.737e-103 Identity = 171/255 (67.06%), Postives = 189/255 (74.12%), Query Frame = 3 Query: 237 MEDFRNKDPANGYAYHVTNIDCCGRTELDMKKINWIRNRVDERVERIKSILSGESQPNQEEE--------LTDQLAAINLNE--ELRPFEIRNSTYHPAVEGVEGVFMNTTLYSHQKDQKSVSKDIPLYLPPTTVYPSG------DHYYQRISIKFDEISAKYPKCKFWCEKTFKNTTQRHYICYNSDMEIEKFKKPNSASGGIIFTEDIKD--WNELGIEKEGGATKDILPRLQNDYNLKKYFNNIVLLGGIDI 947 MEDFRNKDPANGYAYHVTNIDCCGRT+L+MKKINWIRNRVDERVE IKSILSGESQPNQ + L DQLAAINLNE ELRPFEIR S YHPAVEGVEGVFMNTTLY +LP TVYP G DHYYQRISIKFD+IS KYP+CKFWC K QRHYICY S+ +I+ F K SA+ GI F+ED +D +GI+KE GATKDILP LQNDY ++YFNN+VLLGGI+I Sbjct: 1 MEDFRNKDPANGYAYHVTNIDCCGRTKLNMKKINWIRNRVDERVESIKSILSGESQPNQPNQPNQQDMTGLADQLAAINLNEDLELRPFEIRKSNYHPAVEGVEGVFMNTTLYDG-------------HLPDWTVYPFGKPQCQVDHYYQRISIKFDKISEKYPQCKFWCIK----DKQRHYICYKSESKIKNFNKTKSATAGIKFSEDFQDSELEVMGIKKE-GATKDILPYLQNDYKKEEYFNNLVLLGGIEI 237
BLAST of SMED30014618 vs. Planmine SMEST
Match: SMESG000079668.1 (SMESG000079668.1) HSP 1 Score: 253.832 bits (647), Expect = 1.215e-82 Identity = 147/270 (54.44%), Postives = 171/270 (63.33%), Query Frame = 3 Query: 246 FRNK-----DPANGYAYHVTNIDCCGRTELDMKKINWIRNRVD------------------ERVERIKSILSGESQPNQEEELTDQLA-----AINLNEELRPFEIRNSTYHPAVEGVEGVFMNTTLYSHQKDQKSVSKDIPLYLPPTTVYPSG------DHYYQRISIKFDEISAKYPKCKFWCEKTFKNTTQRHYICYNSDMEIEKFKKPNSASGGIIFTEDIKD--WNELGIEKEGGATKDILPRLQNDYNLKKYFNNIVLLGGIDI 947 FRNK DPANGYAYHVT+ DCCGRT+ DM +INWIRNRVD E ++ SILSGESQPNQ+EE L +N EL+ F IR S YHP VEGVEGVFM+TTLY +LP TVYP G DHYYQRISIKFD+IS KYP+CKFWC K QRHYICY S+ +I+ F K SA+ GI F+ED +D +GI+KE GATKDILP LQNDY ++YFNN+VLLGGI+I Sbjct: 5 FRNKNSMNEDPANGYAYHVTSTDCCGRTDNDMLQINWIRNRVDGKKIFVFIKFFYILFGVKECLDHNSSILSGESQPNQQEEDEKDLTYPFKMKTEINCELKAFRIRESYYHPTVEGVEGVFMSTTLYDG-------------HLPDWTVYPFGKPQCQVDHYYQRISIKFDKISEKYPQCKFWCIK----DKQRHYICYKSESKIKNFNKTKSATAGIKFSEDFQDSELEVMGIKKE-GATKDILPYLQNDYKKEEYFNNLVLLGGIEI 256
BLAST of SMED30014618 vs. Planmine SMEST
Match: SMESG000079644.1 (SMESG000079644.1) HSP 1 Score: 140.969 bits (354), Expect = 5.711e-39 Identity = 102/281 (36.30%), Postives = 143/281 (50.89%), Query Frame = 3 Query: 246 FRNKDPANGYAYHVTNIDCCGRTELDMKKINWIRNRVDERVERIKSILSGES-QPNQEEELTDQLAA-INLNEE---LRPFEIRNSTYHPAVEGVEGVFMNTTL-----------YSHQKDQKSVSKDIPLYLPPTTVYPSGDHYYQRISIKFDEISAKYPKCKFWC---------EKTFKNTT---QRHYICYNS----------------DMEIEKFKKPNSASGGIIFTEDIKDWNELGIE-KEGGATKDILPRLQNDYNLKKYFNNIVLLGGIDIPK 953 FR GYAYHVT+IDCCG+T+ M+ I+W N + + + S S + N E+L DQ+ +++ + L+ FEI+ YHP+ EGV+ VF+N TL Y H + S IP YP G H+YQRISIKF IS +YPKCKFWC + F N++ Q YICYN D+EI + + S I+F +DI + ++ + GATK+IL +QN+Y Y+ +IVLLG IDI + Sbjct: 5 FRTTHSMRGYAYHVTSIDCCGKTDNTMRIIDWDHNPPRDGFHYLDAEESQTSNEENSVEDLIDQMGKKVHIKDNKNILKAFEIKKCKYHPSAEGVKAVFLNLTLFNNSLPNSTKVYPHARQIFSEDYCIP---SRRLEYPYG-HFYQRISIKFKRISKRYPKCKFWCLMKDEDKGRSEKFTNSSCVKQISYICYNEEEEIENITFENKYEEYDVEIVR-----NRSDEILFYDDIDQYERCKLKIIKDGATKNILNLIQNNYYKNTYYTSIVLLGDIDISE 276
BLAST of SMED30014618 vs. Planmine SMEST
Match: SMESG000079644.1 (SMESG000079644.1) HSP 1 Score: 137.502 bits (345), Expect = 8.343e-38 Identity = 100/271 (36.90%), Postives = 140/271 (51.66%), Query Frame = 3 Query: 270 GYAYHVTNIDCCGRTELDMKKINWIRNRVDERVERIKSILSGES-QPNQEEELTDQLAA-INLNEE---LRPFEIRNSTYHPAVEGVEGVFMNTTL-----------YSHQKDQKSVSKDIPLYLPPTTVYPSGDHYYQRISIKFDEISAKYPKCKFWC---------EKTFKNTT---QRHYICYNS----------------DMEIEKFKKPNSASGGIIFTEDIKDWNELGIE-KEGGATKDILPRLQNDYNLKKYFNNIVLLGGIDI 947 GYAYHVT+IDCCG+T+ M+ I+W N + + + S S + N E+L DQ+ +++ + L+ FEI+ YHP+ EGV+ VF+N TL Y H + S IP YP G H+YQRISIKF IS +YPKCKFWC + F N++ Q YICYN D+EI + + S I+F +DI + ++ + GATK+IL +QN+Y Y+ +IVLLG IDI Sbjct: 3 GYAYHVTSIDCCGKTDNTMRIIDWDHNPPRDGFHYLDAEESQTSNEENSVEDLIDQMGKKVHIKDNKNILKAFEIKKCKYHPSAEGVKAVFLNLTLFNNSLPNSTKVYPHARQIFSEDYCIP---SRRLEYPYG-HFYQRISIKFKRISKRYPKCKFWCLMKDEDKGRSEKFTNSSCVKQISYICYNEEEEIENITFENKYEEYDVEIVR-----NRSDEILFYDDIDQYERCKLKIIKDGATKNILNLIQNNYYKNTYYTSIVLLGDIDI 264 The following BLAST results are available for this feature:
BLAST of SMED30014618 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30014618 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30014618 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30014618 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30014618 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30014618 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30014618 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30014618 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30014618 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30014618 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30014618 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30014618 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30014618 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30014618 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 >SMED30014618 ID=SMED30014618|Name=SMED30014618|organism=Schmidtea mediterranea sexual|type=transcript|length=1146bpback to top protein sequence of SMED30014618-orf-1 >SMED30014618-orf-1 ID=SMED30014618-orf-1|Name=SMED30014618-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=275bp MTKIYHCIKDEKMEDFRNKDPANGYAYHVTNIDCCGRTELDMKKINWIRNback to top Annotated Terms
The following terms have been associated with this transcript:
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