SMED30034824
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., 2020SMED30034824 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 9
Alignments
SMED30034824 aligns in the following genomic locations:
Homology
BLAST of SMED30034824 vs. TrEMBL
Match: A0A267FEU5 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig019061g1 PE=4 SV=1) HSP 1 Score: 60.8474 bits (146), Expect = 2.826e-8 Identity = 30/62 (48.39%), Postives = 39/62 (62.90%), Query Frame = 1 Query: 136 VQSVTLEDGKQNPGLYIKYDTSEMNLGLHIGLSILITFAILTIIWCIVNAIFKLQKKPRRTR 321 V+SVTL++GK NP YI YDT E N +H+ +S+ I +AIL IW V KL K R+ R Sbjct: 18 VRSVTLQEGKSNPQKYIYYDTDEFNPWIHLAISLPILYAILIFIWSGVTLYMKLSGKSRQRR 79
BLAST of SMED30034824 vs. TrEMBL
Match: A0A267DR65 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig017648g1 PE=4 SV=1) HSP 1 Score: 59.3066 bits (142), Expect = 1.037e-7 Identity = 29/62 (46.77%), Postives = 38/62 (61.29%), Query Frame = 1 Query: 136 VQSVTLEDGKQNPGLYIKYDTSEMNLGLHIGLSILITFAILTIIWCIVNAIFKLQKKPRRTR 321 V+ VTL++GK NP YI YDT E N +H+ +S+ I +AIL IW V KL K R+ R Sbjct: 19 VRGVTLQEGKSNPQKYIYYDTDEFNPWIHLAISLPILYAILIFIWSGVTLYMKLSGKSRQRR 80
BLAST of SMED30034824 vs. TrEMBL
Match: A0A0R3T5A7 (Uncharacterized protein OS=Rodentolepis nana OX=102285 GN=HNAJ_LOCUS2243 PE=4 SV=1) HSP 1 Score: 58.151 bits (139), Expect = 3.313e-7 Identity = 32/72 (44.44%), Postives = 42/72 (58.33%), Query Frame = 1 Query: 124 FTFKVQSVTLEDGKQNPGLYIKYDTSEMNLGLHIGLSILITFAILTIIWCIVNAIFK-LQKKPRRTRTYESH 336 T + ++TLE+G N YI YDTS N G+H GL++LITF IL V AI K L+K+ +R SH Sbjct: 15 LTHMISAITLEEGMANKDKYIFYDTSSFNAGIHAGLALLITFGILGTFTSTVMAITKALEKRRKRHTLTTSH 86
BLAST of SMED30034824 vs. TrEMBL
Match: G7YQP5 (Uncharacterized protein OS=Clonorchis sinensis OX=79923 GN=CLF_107516 PE=4 SV=1) HSP 1 Score: 56.6102 bits (135), Expect = 7.255e-7 Identity = 29/63 (46.03%), Postives = 41/63 (65.08%), Query Frame = 1 Query: 136 VQSVTLEDGKQNPGLYIKYDTSEMNLGLHIGLSILITFAILTIIWCIVNAIFKLQKKPRRTRT 324 VQ VTLE+G +NP YI YD + N+G+H G+S+LIT++IL I+ + I + RR RT Sbjct: 16 VQMVTLEEGLKNPEKYIFYDQNPFNIGMHAGISLLITYSILAIVLTFITIISRALGY-RRKRT 77
BLAST of SMED30034824 vs. TrEMBL
Match: A0A183PI93 (Uncharacterized protein OS=Schistosoma mattheei OX=31246 GN=SMTD_LOCUS14079 PE=4 SV=1) HSP 1 Score: 54.6842 bits (130), Expect = 3.983e-6 Identity = 23/42 (54.76%), Postives = 32/42 (76.19%), Query Frame = 1 Query: 136 VQSVTLEDGKQNPGLYIKYDTSEMNLGLHIGLSILITFAILT 261 VQ VTLE +P YI+YDTS+ N+G+H+GLS+LI + IL+ Sbjct: 18 VQMVTLEQAMSDPDKYIRYDTSDFNIGMHVGLSLLINYGILS 59
BLAST of SMED30034824 vs. Planmine SMEST
Match: SMESG000035183.1 (SMESG000035183.1) HSP 1 Score: 156.762 bits (395), Expect = 7.554e-48 Identity = 91/91 (100.00%), Postives = 91/91 (100.00%), Query Frame = 1 Query: 67 MTFWXXXXXXXXXXXXXSFFTFKVQSVTLEDGKQNPGLYIKYDTSEMNLGLHIGLSILITFAILTIIWCIVNAIFKLQKKPRRTRTYESHL 339 MTFWLVMRLNLLLLSILSFFTFKVQSVTLEDGKQNPGLYIKYDTSEMNLGLHIGLSILITFAILTIIWCIVNAIFKLQKKPRRTRTYESHL Sbjct: 1 MTFWLVMRLNLLLLSILSFFTFKVQSVTLEDGKQNPGLYIKYDTSEMNLGLHIGLSILITFAILTIIWCIVNAIFKLQKKPRRTRTYESHL 91
BLAST of SMED30034824 vs. Planmine SMEST
Match: SMESG000022725.1 (SMESG000022725.1) HSP 1 Score: 54.6842 bits (130), Expect = 8.705e-10 Identity = 25/56 (44.64%), Postives = 37/56 (66.07%), Query Frame = 1 Query: 136 VQSVTLEDGKQNPGLYIKYDTSEMNLGLHIGLSILITFAILTIIWCIVNAIFKLQK 303 V+ VTL + P +YIKYD + + HIG+S+ I +AIL IW +VN IFK+++ Sbjct: 4 VKCVTLGTALKEPDIYIKYDQTPFRIWFHIGISLAICYAILGTIWSMVNLIFKIRE 59 The following BLAST results are available for this feature:
BLAST of SMED30034824 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30034824 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30034824 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30034824 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30034824 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30034824 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30034824 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30034824 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30034824 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30034824 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30034824 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30034824 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30034824 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30034824 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 2
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30034824 ID=SMED30034824|Name=SMED30034824|organism=Schmidtea mediterranea sexual|type=transcript|length=1022bpback 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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