SMED30022142
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., 2020SMED30022142 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Homology
BLAST of SMED30022142 vs. Planmine SMEST
Match: SMESG000070064.1 (SMESG000070064.1) HSP 1 Score: 731.095 bits (1886), Expect = 0.000e+0 Identity = 366/395 (92.66%), Postives = 372/395 (94.18%), Query Frame = 3 Query: 471 MDDEVIIDYFTSEGFTPRSTANGSNEFTSKNSGDEVKTSNYKDSIDEELILVQKLFSELTMAVEKEEDVVEKFNTLNAEHGNEMLKKIVSYVPHNQLQSSPKLEPIMFQMACKIDKYEGAFDRLHKDHLINLHQQNQYQMTVYNVLLIKDFELFQRFLSYLNTREFEIGISYFIQNIDGVDEMNMVVNSTDSHPRVFNYPIKTNKKDSIQHMEQYNSAEKILIHNGILYCRIVLNDPSKLKPLTVNEKQALVKNLDSLNILGFILNEPMENEESFTAELANIYPDSEPIIKLVVDKNPAALLESSFFILLAEKNVVNFFQCLKFLLSLKIERRFLCEMCLRENEEGRTLVSVVESSNHFWENGRQIDKCIYISEKNVNNAQTVNFILEFIEKYRN 1655 MDDE IDYFTSEGFTPRSTANGSNEFTSK+S DEVKTSNYKDSIDEELILVQKLFSELTMAVEKEEDVVEKFNTLNAEHG+EMLKKIVSYVPHNQLQSSPKLEPIMFQMACKIDKYEGAFDRLHKDHL+NLHQQNQYQMTVYNVLLIKDFELFQRFLSYLNTREFEIGISYFIQNIDGVDEMNMVVNSTDSHPRVFNYPIKTNKKDSIQHME+YNSAEKILIHNGILYCRI+LNDPSKLKPLTVNEKQALVKNLDSLNILGFILNEPMENEESFTAELAN YPDSE IIKLVVDKNPAALLESSFFILLAEKNVVNFFQCLKFLLSLKIERRFLCEMCLRENEEGRTLVSVVE S+KNVNNAQTVNFILEFIEKYRN Sbjct: 1 MDDE-FIDYFTSEGFTPRSTANGSNEFTSKSSDDEVKTSNYKDSIDEELILVQKLFSELTMAVEKEEDVVEKFNTLNAEHGDEMLKKIVSYVPHNQLQSSPKLEPIMFQMACKIDKYEGAFDRLHKDHLVNLHQQNQYQMTVYNVLLIKDFELFQRFLSYLNTREFEIGISYFIQNIDGVDEMNMVVNSTDSHPRVFNYPIKTNKKDSIQHMEEYNSAEKILIHNGILYCRILLNDPSKLKPLTVNEKQALVKNLDSLNILGFILNEPMENEESFTAELANSYPDSESIIKLVVDKNPAALLESSFFILLAEKNVVNFFQCLKFLLSLKIERRFLCEMCLRENEEGRTLVSVVE------------------SKKNVNNAQTVNFILEFIEKYRN 376
BLAST of SMED30022142 vs. Planmine SMEST
Match: SMESG000070064.1 (SMESG000070064.1) HSP 1 Score: 724.931 bits (1870), Expect = 0.000e+0 Identity = 365/396 (92.17%), Postives = 372/396 (93.94%), Query Frame = 3 Query: 471 MDDEVIIDYFTSEGFTPRSTANGSNEFTS-KNSGDEVKTSNYKDSIDEELILVQKLFSELTMAVEKEEDVVEKFNTLNAEHGNEMLKKIVSYVPHNQLQSSPKLEPIMFQMACKIDKYEGAFDRLHKDHLINLHQQNQYQMTVYNVLLIKDFELFQRFLSYLNTREFEIGISYFIQNIDGVDEMNMVVNSTDSHPRVFNYPIKTNKKDSIQHMEQYNSAEKILIHNGILYCRIVLNDPSKLKPLTVNEKQALVKNLDSLNILGFILNEPMENEESFTAELANIYPDSEPIIKLVVDKNPAALLESSFFILLAEKNVVNFFQCLKFLLSLKIERRFLCEMCLRENEEGRTLVSVVESSNHFWENGRQIDKCIYISEKNVNNAQTVNFILEFIEKYRN 1655 MDDE IDYFTSEGFTPRSTANGSNEFTS ++S DEVKTSNYKDSIDEELILVQKLFSELTMAVEKEEDVVEKFNTLNAEHG+EMLKKIVSYVPHNQLQSSPKLEPIMFQMACKIDKYEGAFDRLHKDHL+NLHQQNQYQMTVYNVLLIKDFELFQRFLSYLNTREFEIGISYFIQNIDGVDEMNMVVNSTDSHPRVFNYPIKTNKKDSIQHME+YNSAEKILIHNGILYCRI+LNDPSKLKPLTVNEKQALVKNLDSLNILGFILNEPMENEESFTAELAN YPDSE IIKLVVDKNPAALLESSFFILLAEKNVVNFFQCLKFLLSLKIERRFLCEMCLRENEEGRTLVSVVE S+KNVNNAQTVNFILEFIEKYRN Sbjct: 1 MDDE-FIDYFTSEGFTPRSTANGSNEFTSIESSDDEVKTSNYKDSIDEELILVQKLFSELTMAVEKEEDVVEKFNTLNAEHGDEMLKKIVSYVPHNQLQSSPKLEPIMFQMACKIDKYEGAFDRLHKDHLVNLHQQNQYQMTVYNVLLIKDFELFQRFLSYLNTREFEIGISYFIQNIDGVDEMNMVVNSTDSHPRVFNYPIKTNKKDSIQHMEEYNSAEKILIHNGILYCRILLNDPSKLKPLTVNEKQALVKNLDSLNILGFILNEPMENEESFTAELANSYPDSESIIKLVVDKNPAALLESSFFILLAEKNVVNFFQCLKFLLSLKIERRFLCEMCLRENEEGRTLVSVVE------------------SKKNVNNAQTVNFILEFIEKYRN 377
BLAST of SMED30022142 vs. Planmine SMEST
Match: SMESG000070059.1 (SMESG000070059.1) HSP 1 Score: 237.654 bits (605), Expect = 8.747e-76 Identity = 136/153 (88.89%), Postives = 141/153 (92.16%), Query Frame = 3 Query: 63 MNQTSRRPLNNTNNIRNHIKHQLLQNIKQEFVRCFKRYRNLVNNNDSKIFRNDFYNTLKTEILKSLDYKEKQNIMQTIQQEFYSPEMTDMLSQSNHSEYFNNVXXXXXXXXXXXXXXWPNYILSTNDISDQSLGR-NMDDEVIIDYFTSEGFT 518 MN+TSRRPLNNTNNIR+HIKHQLLQNIKQEFVRCFKRYRNLVNNND+KIFR DFYNTLKTEILKSLDYKEKQNIMQTIQQEFYSPEMTDMLSQSNHSEYFNNVSENSFMNSININSSWPNYILSTNDISDQSLGR N D + + GFT Sbjct: 1 MNKTSRRPLNNTNNIRDHIKHQLLQNIKQEFVRCFKRYRNLVNNNDNKIFRKDFYNTLKTEILKSLDYKEKQNIMQTIQQEFYSPEMTDMLSQSNHSEYFNNVSENSFMNSININSSWPNYILSTNDISDQSLGRTNKKDSIQHTEQYNPGFT 153
BLAST of SMED30022142 vs. Planmine SMEST
Match: SMESG000070066.1 (SMESG000070066.1) HSP 1 Score: 67.0106 bits (162), Expect = 8.470e-12 Identity = 40/122 (32.79%), Postives = 68/122 (55.74%), Query Frame = 3 Query: 1122 AEKILIHNGILYCRIVLNDPSKLKPLTVNEKQALVKNLDSLNILGFILNEPMENEESFTAELANIYPDSEPIIKLVVDKNPAALLESSFFILLAEKNVVNFFQCLKFLLSLKIERRFLCEMC 1487 E+ LI+ GI YCR++L+ K T+ +K L S +IL ++LNE M+N++S+ L YP S I ++ ++ ++L S F+L AEKN+ + L L + K+++ L + C Sbjct: 175 GEQYLIYKGIYYCRVLLSKGYHEKDNTI------IKELKSRDILNYVLNEQMQNDKSYLMILVERYPSSYAEILFLLKEDEGSILGSPIFVLFAEKNMNQLYDFLIKLTNDKLDKNKLSQTC 290
BLAST of SMED30022142 vs. Planmine SMEST
Match: SMESG000070066.1 (SMESG000070066.1) HSP 1 Score: 67.0106 bits (162), Expect = 8.534e-12 Identity = 40/122 (32.79%), Postives = 68/122 (55.74%), Query Frame = 3 Query: 1122 AEKILIHNGILYCRIVLNDPSKLKPLTVNEKQALVKNLDSLNILGFILNEPMENEESFTAELANIYPDSEPIIKLVVDKNPAALLESSFFILLAEKNVVNFFQCLKFLLSLKIERRFLCEMC 1487 E+ LI+ GI YCR++L+ K T+ +K L S +IL ++LNE M+N++S+ L YP S I ++ ++ ++L S F+L AEKN+ + L L + K+++ L + C Sbjct: 176 GEQYLIYKGIYYCRVLLSKGYHEKDNTI------IKELKSRDILNYVLNEQMQNDKSYLMILVERYPSSYAEILFLLKEDEGSILGSPIFVLFAEKNMNQLYDFLIKLTNDKLDKNKLSQTC 291 The following BLAST results are available for this feature:
BLAST of SMED30022142 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30022142 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30022142 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30022142 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30022142 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30022142 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30022142 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30022142 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30022142 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30022142 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30022142 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30022142 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30022142 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30022142 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 >SMED30022142 ID=SMED30022142|Name=SMED30022142|organism=Schmidtea mediterranea sexual|type=transcript|length=1707bpback to top protein sequence of SMED30022142-orf-1 >SMED30022142-orf-1 ID=SMED30022142-orf-1|Name=SMED30022142-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=532bp MNQTSRRPLNNTNNIRNHIKHQLLQNIKQEFVRCFKRYRNLVNNNDSKIFback 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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