SMED30026394
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., 2020SMED30026394 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 21Note: Hover over icons to view figure legend
Alignments
SMED30026394 aligns in the following genomic locations:
Homology
BLAST of SMED30026394 vs. TrEMBL
Match: I1ZIE8 (Uncharacterized protein (Fragment) OS=Schmidtea mediterranea OX=79327 PE=2 SV=1) HSP 1 Score: 183.341 bits (464), Expect = 6.702e-55 Identity = 167/180 (92.78%), Postives = 168/180 (93.33%), Query Frame = 2 Query: 47 QGKPIEKKWFVDDALHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGPERDRHRSRNDKKWFVDDALHLAGGIV-----------DGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGPERDRHRSRNYKKSVISKSA 553 QGKPIEKKWFVDDALH AGGIVGGAANLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHLAGGIV DGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISK+A Sbjct: 20 QGKPIEKKWFVDDALHHAGGIVGGAANLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHLAGGIVGGAANLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISKAA 199
BLAST of SMED30026394 vs. Planmine SMEST
Match: SMESG000029602.1 (SMESG000029602.1) HSP 1 Score: 133.65 bits (335), Expect = 1.194e-39 Identity = 106/120 (88.33%), Postives = 109/120 (90.83%), Query Frame = 2 Query: 227 DKKWFVDDALH-----------LAGGIVDGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGPERDRHRSRNYKKSVISKSA 553 +KKWFVDDALH LAGG+VDGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISK+A Sbjct: 22 EKKWFVDDALHHAGGIVGGAANLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISKAA 141 HSP 2 Score: 133.65 bits (335), Expect = 1.220e-39 Identity = 106/124 (85.48%), Postives = 107/124 (86.29%), Query Frame = 2 Query: 47 QGKPIEKKWFVDDALHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGPERDRHRSRNDKKWFVDDALHLAGGI-----------VDGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDA 385 QGKPIEKKWFVDDALH AGGIVGGAANLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHLAGGI VDGAANLAGAAIDVVAGGPERDRHRSRN KK + A Sbjct: 17 QGKPIEKKWFVDDALHHAGGIVGGAANLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISKA 140
BLAST of SMED30026394 vs. Planmine SMEST
Match: SMESG000029612.1 (SMESG000029612.1) HSP 1 Score: 86.6557 bits (213), Expect = 1.281e-21 Identity = 46/64 (71.88%), Postives = 48/64 (75.00%), Query Frame = 2 Query: 227 DKKWFVDDALHLAGGIV-----------DGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDA 385 +KKWFVDDALHLAGGIV DGAANLAGAAIDVVAGGPERDRHRSRN KK + A Sbjct: 62 EKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISKA 125 HSP 2 Score: 57.3806 bits (137), Expect = 1.257e-10 Identity = 67/87 (77.01%), Postives = 71/87 (81.61%), Query Frame = 2 Query: 293 LAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGPERDRHRSRNYKKSVISKSA 553 L + V+ G P +KKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISK+A Sbjct: 48 LVALCVSVIQGKPI--------EKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISKAA 126 HSP 3 Score: 55.8398 bits (133), Expect = 5.406e-10 Identity = 61/69 (88.41%), Postives = 64/69 (92.75%), Query Frame = 2 Query: 47 QGKPIEKKWFVDDALHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGPERDRHRSRNDKKWFVDDA 253 QGKPIEKKWFVDDALH+AGGIVGGAA+LAGGVVDGAANLAGAAIDVVAGGPERDRHRSRN KK + A Sbjct: 57 QGKPIEKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISKA 125
BLAST of SMED30026394 vs. Planmine SMEST
Match: SMESG000029612.1 (SMESG000029612.1) HSP 1 Score: 86.2705 bits (212), Expect = 2.195e-21 Identity = 46/64 (71.88%), Postives = 48/64 (75.00%), Query Frame = 2 Query: 227 DKKWFVDDALHLAGGIV-----------DGAANLAGAAIDVVAGGPERDRHRSRNDKKWFVDDA 385 +KKWFVDDALHLAGGIV DGAANLAGAAIDVVAGGPERDRHRSRN KK + A Sbjct: 72 EKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISKA 135 HSP 2 Score: 57.3806 bits (137), Expect = 1.876e-10 Identity = 67/87 (77.01%), Postives = 71/87 (81.61%), Query Frame = 2 Query: 293 LAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGPERDRHRSRNYKKSVISKSA 553 L + V+ G P +KKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISK+A Sbjct: 58 LVALCVSVIQGKPI--------EKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISKAA 136 HSP 3 Score: 55.0694 bits (131), Expect = 1.168e-9 Identity = 61/69 (88.41%), Postives = 64/69 (92.75%), Query Frame = 2 Query: 47 QGKPIEKKWFVDDALHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGPERDRHRSRNDKKWFVDDA 253 QGKPIEKKWFVDDALH+AGGIVGGAA+LAGGVVDGAANLAGAAIDVVAGGPERDRHRSRN KK + A Sbjct: 67 QGKPIEKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKSVISKA 135
BLAST of SMED30026394 vs. Planmine SMEST
Match: SMESG000029612.1 (SMESG000029612.1) HSP 1 Score: 84.7297 bits (208), Expect = 6.282e-20 Identity = 45/58 (77.59%), Postives = 46/58 (79.31%), Query Frame = 2 Query: 227 DKKWFVDDALHLAGGIV-----------DGAANLAGAAIDVVAGGPERDRHRSRNDKK 367 +KKWFVDDALHLAGGIV DGAANLAGAAIDVVAGGPERDRHRSRN KK Sbjct: 62 EKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKK 119 HSP 2 Score: 51.9878 bits (123), Expect = 4.956e-8 Identity = 60/63 (95.24%), Postives = 62/63 (98.41%), Query Frame = 2 Query: 47 QGKPIEKKWFVDDALHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGPERDRHRSRNDKK 235 QGKPIEKKWFVDDALH+AGGIVGGAA+LAGGVVDGAANLAGAAIDVVAGGPERDRHRSRN KK Sbjct: 57 QGKPIEKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKK 119 HSP 3 Score: 48.1358 bits (113), Expect = 1.037e-6 Identity = 62/81 (76.54%), Postives = 65/81 (80.25%), Query Frame = 2 Query: 293 LAGAAIDVVAGGPERDRHRSRNDKKWFVDDALHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGPERDRHRSRNYKKS 535 L + V+ G P +KKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKS Sbjct: 48 LVALCVSVIQGKP--------IEKKWFVDDALHLAGGIVGGAADLAGGVVDGAANLAGAAIDVVAGGPERDRHRSRNYKKS 120 The following BLAST results are available for this feature:
BLAST of SMED30026394 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30026394 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30026394 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30026394 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30026394 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30026394 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30026394 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30026394 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 1
BLAST of SMED30026394 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30026394 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30026394 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30026394 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30026394 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30026394 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 4
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30026394 ID=SMED30026394|Name=SMED30026394|organism=Schmidtea mediterranea sexual|type=transcript|length=665bpback to top protein sequence of SMED30026394-orf-1 >SMED30026394-orf-1 ID=SMED30026394-orf-1|Name=SMED30026394-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=185bp NVLCLFLVVVSVSVLQGKPIEKKWFVDDALHVAGGIVGGAANLAGGVVDGback 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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