SMED30027083
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., 2020SMED30027083 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 12Note: Hover over icons to view figure legend
Alignments
SMED30027083 aligns in the following genomic locations: Homology
BLAST of SMED30027083 vs. Planmine SMEST
Match: SMESG000016032.1 (SMESG000016032.1) HSP 1 Score: 189.504 bits (480), Expect = 2.582e-58 Identity = 125/129 (96.90%), Postives = 127/129 (98.45%), Query Frame = 3 Query: 3 KEQENTG*IEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGXXXXXXXXXXXXXXXLQNEMIELRREISQSKQQIDAFKQISEXXXXXXNIKV 389 KEQENTG IEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEM+AKEQENRGEINEEIA VNNANRALQNEMIELRREISQSKQQIDAFKQISEQQQLQQNIK+ Sbjct: 208 KEQENTGEIEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMKAKEQENRGEINEEIAEVNNANRALQNEMIELRREISQSKQQIDAFKQISEQQQLQQNIKI 336 HSP 2 Score: 83.1889 bits (204), Expect = 6.008e-19 Identity = 62/95 (65.26%), Postives = 76/95 (80.00%), Query Frame = 3 Query: 78 LQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGXXXXX---XXXXXXXXXXLQNEMIELR-------REISQSKQQ 332 L++EM ++++NI+LK+EISQSKQ+ +NI+LQLTNQQQKMCEMEAKEQEN GEI E + + NANRALQ+EMIELR REISQSKQQ Sbjct: 163 LRNEMESMKSENIELKKEISQSKQKIENIQLQLTNQQQKMCEMEAKEQENTGEIEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQ 257
BLAST of SMED30027083 vs. Planmine SMEST
Match: SMESG000000563.1 (SMESG000000563.1) HSP 1 Score: 183.726 bits (465), Expect = 6.555e-56 Identity = 123/129 (95.35%), Postives = 126/129 (97.67%), Query Frame = 3 Query: 3 KEQENTG*IEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGXXXXXXXXXXXXXXXLQNEMIELRREISQSKQQIDAFKQISEXXXXXXNIKV 389 KEQENTG IE+LNEEMVVIKNANRALQDEMIELRNDNIQLKREISQS+QQNQNIELQLTNQQQKMCEMEAKEQENRGEINEEIAAVNNANRALQNEMIELRREISQSKQQIDAFKQ EQQQLQQNIK+ Sbjct: 222 KEQENTGEIEQLNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSRQQNQNIELQLTNQQQKMCEMEAKEQENRGEINEEIAAVNNANRALQNEMIELRREISQSKQQIDAFKQNCEQQQLQQNIKI 350 HSP 2 Score: 72.7886 bits (177), Expect = 2.601e-15 Identity = 63/112 (56.25%), Postives = 76/112 (67.86%), Query Frame = 3 Query: 27 IEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRG---XXXXXXXXXXXXXXXLQNEMIELR-------REISQSKQQ 332 I L EM +K+ N +++ IELRND I+L+ Q KQQ NIE Q NQQQKMCEMEAKEQEN G ++NEE+ + NANRALQ+EMIELR REISQS+QQ Sbjct: 160 INNLRNEMESMKSENTEMRNYNIELRNDIIELRNANKQFKQQIDNIERQFINQQQKMCEMEAKEQENTGEIEQLNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSRQQ 271 HSP 3 Score: 47.7506 bits (112), Expect = 1.096e-6 Identity = 23/28 (82.14%), Postives = 24/28 (85.71%), Query Frame = 1 Query: 415 IQIQNEMEKCAYEIQSIQTNFGNAEFIN 498 I+IQNEMEKCA EI IQT FGNAEFIN Sbjct: 348 IKIQNEMEKCANEIPPIQTKFGNAEFIN 375
BLAST of SMED30027083 vs. Planmine SMEST
Match: SMESG000000294.1 (SMESG000000294.1) HSP 1 Score: 181.8 bits (460), Expect = 9.664e-56 Identity = 121/129 (93.80%), Postives = 125/129 (96.90%), Query Frame = 3 Query: 3 KEQENTG*IEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGXXXXXXXXXXXXXXXLQNEMIELRREISQSKQQIDAFKQISEXXXXXXNIKV 389 KEQENT IE LNEEMVVIKNANRALQDEMIELRNDNIQLKR+ISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGEIN EIAAVNNANR+LQNEMIELR+EISQSKQQIDAFKQISEQQQLQQNIK+ Sbjct: 222 KEQENTAEIELLNEEMVVIKNANRALQDEMIELRNDNIQLKRQISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGEINGEIAAVNNANRSLQNEMIELRKEISQSKQQIDAFKQISEQQQLQQNIKI 350 HSP 2 Score: 69.3218 bits (168), Expect = 3.607e-14 Identity = 62/112 (55.36%), Postives = 74/112 (66.07%), Query Frame = 3 Query: 27 IEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRG---XXXXXXXXXXXXXXXLQNEMIELR-------REISQSKQQ 332 I L EM +K+ N +++ IELRND I+L+ Q KQQ NIE Q NQQQKMCEMEAKEQEN +NEE+ + NANRALQ+EMIELR R+ISQSKQQ Sbjct: 160 INNLRNEMESMKSENTEMRNYNIELRNDIIELRNANKQFKQQIDNIERQFINQQQKMCEMEAKEQENTAEIELLNEEMVVIKNANRALQDEMIELRNDNIQLKRQISQSKQQ 271 HSP 3 Score: 47.3654 bits (111), Expect = 1.404e-6 Identity = 23/28 (82.14%), Postives = 25/28 (89.29%), Query Frame = 1 Query: 415 IQIQNEMEKCAYEIQSIQTNFGNAEFIN 498 I+IQNEMEKCA EI+ IQT FGNAEFIN Sbjct: 348 IKIQNEMEKCANEIRLIQTKFGNAEFIN 375
BLAST of SMED30027083 vs. Planmine SMEST
Match: SMESG000015894.1 (SMESG000015894.1) HSP 1 Score: 182.956 bits (463), Expect = 1.068e-55 Identity = 122/128 (95.31%), Postives = 126/128 (98.44%), Query Frame = 3 Query: 3 KEQENTG*IEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGXXXXXXXXXXXXXXXLQNEMIELRREISQSKQQIDAFKQISEXXXXXXNIK 386 KEQENTG IEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQS+QQNQNIELQLTNQ+QKMCEMEAKEQ+NRGEINEEIAAVNNANRA+QNEMIELRREISQ KQQIDAFKQISEQQQLQQNIK Sbjct: 208 KEQENTGEIEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSRQQNQNIELQLTNQKQKMCEMEAKEQKNRGEINEEIAAVNNANRAIQNEMIELRREISQFKQQIDAFKQISEQQQLQQNIK 335 HSP 2 Score: 77.411 bits (189), Expect = 5.574e-17 Identity = 59/95 (62.11%), Postives = 74/95 (77.89%), Query Frame = 3 Query: 78 LQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGXXXXX---XXXXXXXXXXLQNEMIELR-------REISQSKQQ 332 L++E+ ++++NI+LKR+ SQSKQQ +NIELQL NQ+QKMCEMEAKEQEN GEI E + + NANRALQ+EMIELR REISQS+QQ Sbjct: 163 LRNEIESMKSENIELKRKFSQSKQQIENIELQLRNQKQKMCEMEAKEQENTGEIEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSRQQ 257
BLAST of SMED30027083 vs. Planmine SMEST
Match: SMESG000000559.1 (SMESG000000559.1) HSP 1 Score: 182.57 bits (462), Expect = 1.338e-55 Identity = 122/129 (94.57%), Postives = 125/129 (96.90%), Query Frame = 3 Query: 3 KEQENTG*IEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGXXXXXXXXXXXXXXXLQNEMIELRREISQSKQQIDAFKQISEXXXXXXNIKV 389 KEQENT IE+LNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGEINEEIAAVNNANRALQNEMIELRREIS+ KQQIDAFKQISEQ QLQQNIK+ Sbjct: 222 KEQENTAEIEQLNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRGEINEEIAAVNNANRALQNEMIELRREISKFKQQIDAFKQISEQHQLQQNIKI 350 HSP 2 Score: 69.707 bits (169), Expect = 2.465e-14 Identity = 63/112 (56.25%), Postives = 74/112 (66.07%), Query Frame = 3 Query: 27 IEELNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMCEMEAKEQENRG---XXXXXXXXXXXXXXXLQNEMIELR-------REISQSKQQ 332 I L EM +K N +++ IELRND I+L+ Q KQQ NIE Q NQQQKMCEMEAKEQEN ++NEE+ + NANRALQ+EMIELR REISQSKQQ Sbjct: 160 INNLRNEMESMKRENTEMRNYNIELRNDIIELRNANEQFKQQIDNIERQFINQQQKMCEMEAKEQENTAEIEQLNEEMVVIKNANRALQDEMIELRNDNIQLKREISQSKQQ 271 HSP 3 Score: 47.3654 bits (111), Expect = 1.373e-6 Identity = 23/28 (82.14%), Postives = 25/28 (89.29%), Query Frame = 1 Query: 415 IQIQNEMEKCAYEIQSIQTNFGNAEFIN 498 I+IQNEMEKCA EI+ IQT FGNAEFIN Sbjct: 348 IKIQNEMEKCANEIRLIQTKFGNAEFIN 375 The following BLAST results are available for this feature:
BLAST of SMED30027083 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30027083 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30027083 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30027083 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30027083 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30027083 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30027083 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30027083 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30027083 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30027083 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30027083 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30027083 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30027083 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30027083 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 >SMED30027083 ID=SMED30027083|Name=SMED30027083|organism=Schmidtea mediterranea sexual|type=transcript|length=498bpback to top protein sequence of SMED30027083-orf-1 >SMED30027083-orf-1 ID=SMED30027083-orf-1|Name=SMED30027083-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=120bp MVVIKNANRALQDEMIELRNDNIQLKREISQSKQQNQNIELQLTNQQQKMback to top Annotated Terms
The following terms have been associated with this transcript:
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