SMED30001103
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., 2020SMED30001103 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 5
Alignments
SMED30001103 aligns in the following genomic locations:
Homology
BLAST of SMED30001103 vs. TrEMBL
Match: A0A2B4SZR9 (Major facilitator superfamily domain-containing protein 6 OS=Stylophora pistillata OX=50429 GN=MFSD6 PE=4 SV=1) HSP 1 Score: 70.4774 bits (171), Expect = 1.794e-9 Identity = 56/186 (30.11%), Postives = 96/186 (51.61%), Query Frame = 2 Query: 155 FRSLKFVCSNVELTIFFLFV-ILGGSVVTVHIEYYMLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNXXXXXXXXXXXXXXDNYGMNGLFRSMSVISLILGLIY 709 F+++ + S+ + F L + I+G S T+ L + + L GL + +SE+ V+ SGK+ + + ++ TFV + R++LYSF+ W L +E +HG TFG ++A +Y G + + + L + F +G + G GG I D+YG LFRS++V S I GL++ Sbjct: 263 FQNVCIILSDCCIVTFLLAILIMGASFSTIGT---FLFWFIQDMNGSHLLMGLTLCMTCVSEVPVMFFSGKLIDRIGHHGVLYLTFVCYTIRYVLYSFIHNAWYILAVEPLHGVTFGAMWAATTSYGGLISPEGMRATVMSLVMATHFGLGKLIAGFGGGAIYDSYGPRILFRSLAVTSAITGLLF 445
BLAST of SMED30001103 vs. TrEMBL
Match: A0A2N2PKT8 (MFS domain-containing protein OS=Chloroflexi bacterium HGW-Chloroflexi-10 OX=2013724 GN=CVU39_00450 PE=4 SV=1) HSP 1 Score: 69.3218 bits (168), Expect = 2.587e-9 Identity = 53/166 (31.93%), Postives = 92/166 (55.42%), Query Frame = 2 Query: 197 IFFLFVILGGSVVTVHIEYYMLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNXXXXXXXXXXXXXXDNYGMNGLFRSMSVISLI 694 +FFL V G +V + + L I+ + A KF GL ++ +SE+ +L S ++ + + L+ A +F R L YSF+ W L+++L+HG TF L + A V+Y+ K + + QGLFS + +G +G +GG + ++ G+ G+FR S+++LI Sbjct: 201 LFFLTVSFCGGMV-LSMSGNFLFIFLQDLGADKFTLGLSLTIATLSELPILFFSSRLLLRWNAQQLMGAALLFVVIRTLAYSFVVDPWLVLLIQLLHGPTFALMWVAGVSYVNKIAPTGLEATAQGLFSGVMLGVGSAIGAFLGGFLYEHIGIVGMFRVASLVALI 365
BLAST of SMED30001103 vs. TrEMBL
Match: A0A1I8FYA3 (MFS domain-containing protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig032673g1 PE=4 SV=1) HSP 1 Score: 67.0106 bits (162), Expect = 2.417e-8 Identity = 39/147 (26.53%), Postives = 74/147 (50.34%), Query Frame = 2 Query: 155 FRSLKFVCSNVELTIFFLFVILGGSVVTVHIEYYMLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFF 595 ++L +C + + IF++ V+L G+ + E ++ V+ R P + G++ + ++ E + +SG + + F+ + R+LL S + W L + +HG +FGL F AM+ + K + QG +QGL S L+F Sbjct: 315 LKALPLMCLSWRIGIFYILVLLSGAAFGI-FESFLAVMLRTMFDPPLYFFGIMFAVQVLVEAPLFALSGCIVSRIGEPACFVIGFLAFALRFLLTSLVPNCWLLLPVNCLHGLSFGLMFPAMLVFAAKQSPEGWQGTVQGLVSGLYF 460
BLAST of SMED30001103 vs. TrEMBL
Match: A0A1I8JJH3 (MFS domain-containing protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig032673g2 PE=4 SV=1) HSP 1 Score: 66.6254 bits (161), Expect = 2.692e-8 Identity = 39/148 (26.35%), Postives = 74/148 (50.00%), Query Frame = 2 Query: 155 FRSLKFVCSNVELTIFFLFVILGGSVVTVHIEYYMLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFN 598 ++L +C + + IF++ V+L G+ + E ++ V+ R P + G++ + ++ E + +SG + + F+ + R+LL S + W L + +HG +FGL F AM+ + K + QG +QGL S L+F Sbjct: 315 LKALPLMCLSWRIGIFYILVLLSGAAFGI-FESFLAVMLRTMFDPPLYFFGIMFAVQVLVEAPLFALSGCIVSRIGEPACFVIGFLAFALRFLLTSLVPNCWLLLPVNCLHGLSFGLMFPAMLVFAAKQSPEGWQGTVQGLVSGLYFG 461
BLAST of SMED30001103 vs. TrEMBL
Match: A0A3M6UMJ8 (MFS domain-containing protein OS=Pocillopora damicornis OX=46731 GN=pdam_00011161 PE=4 SV=1) HSP 1 Score: 66.6254 bits (161), Expect = 3.192e-8 Identity = 49/152 (32.24%), Postives = 78/152 (51.32%), Query Frame = 2 Query: 284 TAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNXXXXXXXXXXXXXXDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPR 739 L GL + +SE+ ++ SGK+ + ++ TFV + R++LYSFL W L +E +HG TFG ++A +Y G + + + GL + F +G + G GG + +YG LFRS++V S I L+ + L LI R Sbjct: 339 NGSHLLMGLTLCMTCVSEVPIMFFSGKLIKCIGHHGVLYLTFVCYTIRYVLYSFLHNAWYVLAVEPLHGVTFGAMWAATTSYGGLISPEGMRATVMGLVMATHFGLGKLIAGFGGGAMYSSYGPRILFRSLAVTSAITCLL-FALSQRLIKR 489
BLAST of SMED30001103 vs. Ensembl Nematostella
Match: EDO38796 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SBW5]) HSP 1 Score: 51.6026 bits (122), Expect = 2.332e-7 Identity = 47/163 (28.83%), Postives = 80/163 (49.08%), Query Frame = 2 Query: 287 APKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNXXXXXXXXXXXXXXDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKN 775 A + L GL+ M +E+ V +G M + ++ R L+Y FL+ W L++E ++G TF ++ V+Y + Q +QG+ SS+++N+GG G L+GG++ YG RSM + L + PL + L C S+ ++I N Sbjct: 295 ASQTLLGLVTVVMCSAEMLVFSCTGTMIGRLGHVGVIILALACTIIRLLIYPFLENPWYVLLVEPMNGITFAAMWATCVSYASILAPNEVQSTMQGVVSSVYYNLGGGTGSLLGGMVYKAYGP----RSMFWATAGLCGVGMPLAIALY---CINSVKEKISN 450
BLAST of SMED30001103 vs. Planmine SMEST
Match: SMESG000008712.1 (SMESG000008712.1) HSP 1 Score: 401.364 bits (1030), Expect = 1.178e-136 Identity = 229/229 (100.00%), Postives = 229/229 (100.00%), Query Frame = 2 Query: 161 SLKFVCSNVELTIFFLFVILGGSVVTVHIEYYMLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNXXXXXXXXXXXXXXDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNXXXXXXXXXXXXKNVESSLINNDR 847 SLKFVCSNVELTIFFLFVILGGSVVTVHIEYYMLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNIGGCLGGLVGGIILDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNEEGILISEELEIKNVESSLINNDR Sbjct: 341 SLKFVCSNVELTIFFLFVILGGSVVTVHIEYYMLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNIGGCLGGLVGGIILDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNEEGILISEELEIKNVESSLINNDR 569
BLAST of SMED30001103 vs. Planmine SMEST
Match: SMESG000008712.1 (SMESG000008712.1) HSP 1 Score: 338.191 bits (866), Expect = 2.912e-117 Identity = 197/197 (100.00%), Postives = 197/197 (100.00%), Query Frame = 2 Query: 257 MLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNXXXXXXXXXXXXXXDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNXXXXXXXXXXXXKNVESSLINNDR 847 MLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNIGGCLGGLVGGIILDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNEEGILISEELEIKNVESSLINNDR Sbjct: 1 MLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNIGGCLGGLVGGIILDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNEEGILISEELEIKNVESSLINNDR 197
BLAST of SMED30001103 vs. Planmine SMEST
Match: SMESG000008712.1 (SMESG000008712.1) HSP 1 Score: 317.775 bits (813), Expect = 2.103e-104 Identity = 196/229 (85.59%), Postives = 197/229 (86.03%), Query Frame = 2 Query: 161 SLKFVCSNVELTIFFLFVILGGSVVTVHIEYYMLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNXXXXXXXXXXXXXXDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNXXXXXXXXXXXXKNVESSLINNDR 847 SLKFVCSNVELTIFFLFVILGGSVVTVHIEYYMLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYF+ LIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNIGGCLGGLVGGIILDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNEEGILISEELEIKNVESSLINNDR Sbjct: 341 SLKFVCSNVELTIFFLFVILGGSVVTVHIEYYMLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFK--------------------------------LIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNIGGCLGGLVGGIILDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNEEGILISEELEIKNVESSLINNDR 537
BLAST of SMED30001103 vs. Planmine SMEST
Match: SMESG000008712.1 (SMESG000008712.1) HSP 1 Score: 292.352 bits (747), Expect = 1.626e-99 Identity = 174/174 (100.00%), Postives = 174/174 (100.00%), Query Frame = 2 Query: 326 MISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNXXXXXXXXXXXXXXDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNXXXXXXXXXXXXKNVESSLINNDR 847 MISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNIGGCLGGLVGGIILDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNEEGILISEELEIKNVESSLINNDR Sbjct: 1 MISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNIGGCLGGLVGGIILDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNEEGILISEELEIKNVESSLINNDR 174
BLAST of SMED30001103 vs. Planmine SMEST
Match: SMESG000008712.1 (SMESG000008712.1) HSP 1 Score: 256.529 bits (654), Expect = 1.348e-85 Identity = 164/197 (83.25%), Postives = 165/197 (83.76%), Query Frame = 2 Query: 257 MLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATFVFWFFRWLLYSFLDKYWQFLILELIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNXXXXXXXXXXXXXXDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNXXXXXXXXXXXXKNVESSLINNDR 847 MLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYF+ LIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNIGGCLGGLVGGIILDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNEEGILISEELEIKNVESSLINNDR Sbjct: 1 MLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFK--------------------------------LIHGTTFGLQFSAMVTYIGKTTSSSAQGRIQGLFSSLFFNIGGCLGGLVGGIILDNYGMNGLFRSMSVISLILGLIYYPLQVWLIPRCCKTSLNKRIKNEEGILISEELEIKNVESSLINNDR 165 The following BLAST results are available for this feature:
BLAST of SMED30001103 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30001103 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30001103 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30001103 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30001103 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30001103 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30001103 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30001103 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30001103 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30001103 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30001103 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30001103 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 1
BLAST of SMED30001103 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30001103 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 >SMED30001103 ID=SMED30001103|Name=SMED30001103|organism=Schmidtea mediterranea sexual|type=transcript|length=1081bpback to top protein sequence of SMED30001103-orf-1 >SMED30001103-orf-1 ID=SMED30001103-orf-1|Name=SMED30001103-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=198bp MLVIYRKFPTAPKFLPGLLISFMMISEITVLGVSGKMFNYFRYEILVSATback 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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