SMED30000994
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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., 2020SMED30000994 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8Note: Hover over icons to view figure legend
Alignments
SMED30000994 aligns in the following genomic locations: Homology
BLAST of SMED30000994 vs. Planmine SMEST
Match: SMESG000000779.1 (SMESG000000779.1) HSP 1 Score: 196.052 bits (497), Expect = 5.456e-58 Identity = 128/208 (61.54%), Postives = 144/208 (69.23%), Query Frame = 1
Query: 421 NTRVLLQKSKRESIRKAKINMLPQGLXXXXXXXXXXLQINVKSKVFESKSIQTTGDSIEKGMMSIEQEVIDILMVNKISEGELIEKRIQRQQTRNLNMQDRSKTVSELKIETKEDVREELSKTTNVER------------------KNYNA*LQNH---NDR--RNYMDNRYKS*Q-KNDYYRHQISQLFGKRGHVNRFCNKRRGKCF 972
N RVLLQKSKRE IRKAKI+M+ +GLNNNEK K+E+ Q NVKSKV ESKSIQ GD+IE G+ SIEQEVIDILMVNKISEGE+IEKRIQ+QQTRNLNMQDRSKTVSE IET EDV +ELSK T++ER N + ND R Y KS +ND YRHQI Q GK+GHVN C+KRRG CF
Sbjct: 282 NQRVLLQKSKREPIRKAKISMVQKGLNNNEKVKEEEHQKNVKSKVLESKSIQKIGDNIEIGVTSIEQEVIDILMVNKISEGEIIEKRIQKQQTRNLNMQDRSKTVSEWIIETNEDVIDELSKITHLERIITIQHGYATQNTTRKTTTNEESIWTTDTKANDLKIREYCKTCQKSGHAENDRYRHQICQQCGKKGHVNNICHKRRGTCF 489 HSP 2 Score: 48.1358 bits (113), Expect = 5.063e-6 Identity = 46/68 (67.65%), Postives = 55/68 (80.88%), Query Frame = 3
Query: 3 RSNTRRNMNDVRYQWTRKYPXXXXXXXXXXXXXXXXXXXXXXMKRNQISSRSNMSKIVNTKEIHTAEQ 206
RSNTRRN NDVR+QWTRKYPEQQQIE +RLQRE IQEIRQRR+ RNQIS+ + KI +E+ + E+
Sbjct: 179 RSNTRRNTNDVRHQWTRKYPEQQQIEWQRLQREGIQEIRQRRINRNQISNETQEDKIKLEQELSSEEK 246
BLAST of SMED30000994 vs. Planmine SMEST
Match: SMESG000028578.1 (SMESG000028578.1) HSP 1 Score: 170.629 bits (431), Expect = 1.612e-48 Identity = 100/109 (91.74%), Postives = 105/109 (96.33%), Query Frame = 1
Query: 481 MLPQGLXXXXXXXXXXLQINVKSKVFESKSIQTTGDSIEKGMMSIEQEVIDILMVNKISEGELIEKRIQRQQTRNLNMQDRSKTVSELKIETKEDVREELSKTTNVERK 807
ML QGLNNNEKDKKE+LQINVKSKV ESKSIQTTGD+IE G+MSIEQEVI+ILMVNKISEGELIEKRIQRQQTRNLNMQDRSKTVSELKIETKE+VREELSKTTN ERK
Sbjct: 1 MLQQGLNNNEKDKKEELQINVKSKVLESKSIQTTGDNIEIGVMSIEQEVINILMVNKISEGELIEKRIQRQQTRNLNMQDRSKTVSELKIETKENVREELSKTTNAERK 109
BLAST of SMED30000994 vs. Planmine SMEST
Match: SMESG000017236.1 (SMESG000017236.1) HSP 1 Score: 120.939 bits (302), Expect = 3.105e-32 Identity = 84/126 (66.67%), Postives = 86/126 (68.25%), Query Frame = 1
Query: 442 KSKRESIRKAKINMLPQGLXXXXXXXXXXLQINVKSKVFESKSIQTTGDSIEKGMMSIEQEVIDILMVNKISEGELIEKRIQRQQTRNLNMQDRSKTVSELKIETKEDVREELSKTTNVERKNYNA 819
KSKR+ IRK KINMLPQGLNNNEKDKKEKLQINVK + ELIEKRIQRQQTRNLNMQDRSKTVSELKIETKEDVREELSKTTNVERKNYNA
Sbjct: 169 KSKRKLIRKVKINMLPQGLNNNEKDKKEKLQINVKKE-------------------------------------ELIEKRIQRQQTRNLNMQDRSKTVSELKIETKEDVREELSKTTNVERKNYNA 257
BLAST of SMED30000994 vs. Planmine SMEST
Match: SMESG000028318.1 (SMESG000028318.1) HSP 1 Score: 94.3597 bits (233), Expect = 4.278e-25 Identity = 48/50 (96.00%), Postives = 49/50 (98.00%), Query Frame = 1
Query: 658 EGELIEKRIQRQQTRNLNMQDRSKTVSELKIETKEDVREELSKTTNVERK 807
EGELIEKRIQRQQTRNLN+QDRSKTVSELKIETKEDVREELSKTTN ERK
Sbjct: 169 EGELIEKRIQRQQTRNLNLQDRSKTVSELKIETKEDVREELSKTTNAERK 218 HSP 2 Score: 38.891 bits (89), Expect = 4.278e-25 Identity = 18/23 (78.26%), Postives = 21/23 (91.30%), Query Frame = 3
Query: 813 QCMTTKPQRSKKLHGQSIQKLTK 881
Q TTKPQR+KK+HGQSI+KLTK
Sbjct: 228 QNTTTKPQRTKKVHGQSIRKLTK 250
BLAST of SMED30000994 vs. Planmine SMEST
Match: SMESG000027747.1 (SMESG000027747.1) HSP 1 Score: 92.4337 bits (228), Expect = 4.347e-22 Identity = 48/56 (85.71%), Postives = 54/56 (96.43%), Query Frame = 1
Query: 640 MVNKISEGELIEKRIQRQQTRNLNMQDRSKTVSELKIETKEDVREELSKTTNVERK 807
MVNKISEGELI+K+IQ+QQTRNLNMQDRSKTVSEL IETKEDV +ELSKTT+V+RK
Sbjct: 1 MVNKISEGELIQKKIQKQQTRNLNMQDRSKTVSELIIETKEDVIDELSKTTHVKRK 56 HSP 2 Score: 30.8018 bits (68), Expect = 4.347e-22 Identity = 14/19 (73.68%), Postives = 18/19 (94.74%), Query Frame = 3
Query: 828 KPQRSKKLHGQSIQKLTKE 884
KPQR+KK+ GQSI+KLTK+
Sbjct: 71 KPQRTKKVPGQSIRKLTKQ 89 The following BLAST results are available for this feature:
BLAST of SMED30000994 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30000994 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30000994 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30000994 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30000994 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30000994 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30000994 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30000994 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30000994 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30000994 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30000994 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30000994 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30000994 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30000994 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 >SMED30000994 ID=SMED30000994|Name=SMED30000994|organism=Schmidtea mediterranea sexual|type=transcript|length=973bpback to top protein sequence of SMED30000994-orf-1 >SMED30000994-orf-1 ID=SMED30000994-orf-1|Name=SMED30000994-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=114bp MLPQGLNNNEKDKKEKLQINVKSKVFESKSIQTTGDSIEKGMMSIEQEVIback to top Annotated Terms
The following terms have been associated with this transcript:
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