SMED30016224
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., 2020SMED30016224 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 3
Alignments
SMED30016224 aligns in the following genomic locations:
Homology
BLAST of SMED30016224 vs. Planmine SMEST
Match: SMESG000034607.1 (SMESG000034607.1) HSP 1 Score: 1016.14 bits (2626), Expect = 0.000e+0 Identity = 564/601 (93.84%), Postives = 579/601 (96.34%), Query Frame = 3 Query: 30 MTDHAISYIKCVSVPSENIKTQSKKNIEIFLKDFKKRRRNLLTKLNKNQISTSQVIQYYNENIDLIKKIKYDRLQKIILLTQEFMENISDDEQEHITDGTNKYSMNIEEDSVYIINNVNKIDEKPLQFLNEKIIDENQSIQIEQMEIDLVPHEVSRNSISDVMXXXXXXXXHQKEVDFQYIKTTKIDKIQELDEQYENASSGMESSPEFDKTFDVKIVNRVEDNKTPFQTDSIKSLAILNQKSINEXXXXXXXXXXXXXXXXXXXDSKVGAIPNR----STAIKTPKQPLYKSKFHPTAQGSNSMSKWKSNSLVKSQTNLCSGSKSQTVSSQKKPLTEIRKQQERIEEDKRRKLEEIKAKRKENCMKLAEINESKKVANSLKSKTNYSSMKPGIPNQSATLPAGSSLKAAHAAGLPSSLPQRPIIXXXXXXXXXXXXLQRKQNPIDKFPMFPLSSNQMANAMKPINCNPHGKANVIXXXXXXXXXXXCVLLPEFKTPFSKKRLTILSDSCKKIIDSHESYXXXXXXXXXXXXXXXXXNQPKSRIPRWSRKENGTLEKLVRYQMKHSNPSDIILEARYVRIDYSEVFGEDTTIEPGVLEAWL 1820 MTDHAISYIKCVSVPSENIKTQSKKNIEIFLKDFKKRRRNLLTKLNKNQISTSQVIQYYNENIDLIKKIKYDRLQKIILLTQEFMENISDDEQEHITDGTNKYSMNIEEDSVYIINNVNKIDEKPLQFLNEKI+DENQSIQIEQMEIDLVPHEVSRNSISDVMEIIEEDEEHQKEVDFQYIKTTKIDKIQELDEQYENASSGMESSPEFDKTFDVKIVNRVEDNKTPFQTDSIKSLAILNQK S+++ SKL ++ L SK+G PNR ++ IKTP+QPLYKSKFHPTAQGSNSMSKWKSNSLVKSQTNLCSGS SQT+SSQKKPLTEIRKQQERIEE+KRRKL+EIKAKRKENCMKLAEINESKKVANSLKSKTNYSSMKPGIPNQSATLPAGSSLKAAHAAGLPSSLPQRPIIASSQSQKSTTATLQRKQNPIDKFPMFPL+SNQMANAMKPINCNPHGKANVISSSNTTGSQSSCVLLPEFKTPFSKKRLTILSDSCKKIIDSHESYDLSGLVDVDSDEDEDEENQPKSRIPRWSRKENGTLEKLVRYQMKHSNPSDIILEAR+VRIDYSEVFGEDTTIEPGVLEAWL Sbjct: 1 MTDHAISYIKCVSVPSENIKTQSKKNIEIFLKDFKKRRRNLLTKLNKNQISTSQVIQYYNENIDLIKKIKYDRLQKIILLTQEFMENISDDEQEHITDGTNKYSMNIEEDSVYIINNVNKIDEKPLQFLNEKIMDENQSIQIEQMEIDLVPHEVSRNSISDVMEIIEEDEEHQKEVDFQYIKTTKIDKIQELDEQYENASSGMESSPEFDKTFDVKIVNRVEDNKTPFQTDSIKSLAILNQKP-----STIQANSKLFELNTNLSASKLGPPPNRLPVKNSQIKTPQQPLYKSKFHPTAQGSNSMSKWKSNSLVKSQTNLCSGSTSQTLSSQKKPLTEIRKQQERIEEEKRRKLDEIKAKRKENCMKLAEINESKKVANSLKSKTNYSSMKPGIPNQSATLPAGSSLKAAHAAGLPSSLPQRPIIASSQSQKSTTATLQRKQNPIDKFPMFPLASNQMANAMKPINCNPHGKANVISSSNTTGSQSSCVLLPEFKTPFSKKRLTILSDSCKKIIDSHESYDLSGLVDVDSDEDEDEENQPKSRIPRWSRKENGTLEKLVRYQMKHSNPSDIILEARHVRIDYSEVFGEDTTIEPGVLEAWL 596
BLAST of SMED30016224 vs. Planmine SMEST
Match: SMESG000033226.1 (SMESG000033226.1) HSP 1 Score: 753.051 bits (1943), Expect = 0.000e+0 Identity = 472/609 (77.50%), Postives = 517/609 (84.89%), Query Frame = 3 Query: 30 MTDHAISYIKCVSVPSENIKTQSKKNIEIFLKDFKKRRRNLLTKLNKNQISTSQVIQYYNENIDLIKKIKYDRLQKIILLTQEFMENISDDEQEHITDGTNKYSMNIEEDSVYIINN----VNKIDEKPLQFLNEKIIDENQSIQIEQMEIDLVPHEVSRNSISDVMXXXXXXXXHQKEVDFQ-YIKTTKIDKIQE--LDEQYENASSGMESSPE---FDKTFDVKIVNRVEDNKTPFQ--TDSIKSLAILNQKSINEXXXXXXXXXXXXXXXXXXXDSKVGAIPNRSTAIKTPKQPLYKSKFHPTAQGSNSMSKWKSNSLVKSQTNLCSGSKSQTVSSQKKPLTEIRKQQERIEEDKRRKLEEIKAKRKENCMKLAEINESKKVANSLKSKTNYSSMKPGIPNQSATLPAGSSLKAAHAAGLPSSLPQRPIIXXXXXXXXXXXXLQRKQNPIDKFPMFPLSSNQMANAMKPINCNPHGKANVIXXXXXXXXXXXCVLLPEFKTPFSKKRLTILSDSCKKIIDSHESYXXXXXXXXXXXXXXXXXNQPKSRIPRWSRKENGTLEKLVRYQMKHSNPSDIILEARYVRIDYSEVFGEDTTIEPGVLEAWL 1820 M D A+SYIKCVS+PSENIK+QSKK+ +IFLK FK + NLL KLNK QI+ S +I+++ E+I+ + KIK +RLQKIILLT++ ENISDDE E IT+ +++ N +D + N D+K N + +++N SIQ EQM++DL+P+E R+SI+DVMEII+EDEE+QKEVDF+ IK KIDK + +D + ENASSG+ESS + DK F VKIVNRVEDN++ Q T SIKSLAILNQKSINEKLSSVKMKSKLLTMSMALKDSKVGAIPNRSTAIKTPKQPLYK +KSQTNLCSGSKSQTVSSQKKPLTEIRKQQERIEEDKRRKLEEIKAKRKENCMKLAEINESKKVANSLKSKTNYSSMKPGIPNQSATLPAGSSLKAAHAAGLPSSLPQRPIIASSQSQKSTTATLQRKQNPIDKFPMFPLSSNQMANAMKPINCNPHGKANVISSSNTTGSQSSCVLLPEFKTPFSKKRLTILSDSCKKIIDSHESYDLSGLVDVDSDEDEDEENQPKSRIPRWSRKENGTLEKLVRYQMKHSNPSDIILEARYVRIDYSEVFGEDTTIEPGVLEAWL Sbjct: 1 MNDSAVSYIKCVSIPSENIKSQSKKHTQIFLKKFKLHKCNLLAKLNKKQINKSHIIRHFKESIEQLNKIKRERLQKIILLTKDLFENISDDETEVITEELDQF--NTIDDVLLTTQERQCETNITDKKSSN--NNQTLNKNVSIQNEQMDVDLLPNETRRDSIADVMEIIDEDEENQKEVDFEDNIKEIKIDKFPQVDIDNRKENASSGVESSSQEKPVDKIFGVKIVNRVEDNRSYPQPKTGSIKSLAILNQKSINEKLSSVKMKSKLLTMSMALKDSKVGAIPNRSTAIKTPKQPLYK---------------------IKSQTNLCSGSKSQTVSSQKKPLTEIRKQQERIEEDKRRKLEEIKAKRKENCMKLAEINESKKVANSLKSKTNYSSMKPGIPNQSATLPAGSSLKAAHAAGLPSSLPQRPIIASSQSQKSTTATLQRKQNPIDKFPMFPLSSNQMANAMKPINCNPHGKANVISSSNTTGSQSSCVLLPEFKTPFSKKRLTILSDSCKKIIDSHESYDLSGLVDVDSDEDEDEENQPKSRIPRWSRKENGTLEKLVRYQMKHSNPSDIILEARYVRIDYSEVFGEDTTIEPGVLEAWL 584
BLAST of SMED30016224 vs. Planmine SMEST
Match: SMESG000033226.1 (SMESG000033226.1) HSP 1 Score: 280.026 bits (715), Expect = 8.528e-89 Identity = 194/310 (62.58%), Postives = 239/310 (77.10%), Query Frame = 3 Query: 30 MTDHAISYIKCVSVPSENIKTQSKKNIEIFLKDFKKRRRNLLTKLNKNQISTSQVIQYYNENIDLIKKIKYDRLQKIILLTQEFMENISDDEQEHITDGTNKYSMNIEEDSVYIIN----NVNKIDEKPLQFLNEKIIDENQSIQIEQMEIDLVPHEVSRNSISDVMXXXXXXXXHQKEVDFQ-YIKTTKIDKI--QELDEQYENASSGMESSPE---FDKTFDVKIVNRVEDNKTPFQ--TDSIKSLAILNQKSINEXXXXXXXXXXXXXXXXXXXDSKVGAIPNRSTAIKTPKQPLYKSKFHPTAQGS 923 M D A+SYIKCVS+PSENIK+QSKK+ +IFLK FK + NLL KLNK QI+ S +I+++ E+I+ + KIK +RLQKIILLT++ ENISDDE E IT+ +++ N +D + N D+K N + +++N SIQ EQM++DL+P+E R+SI+DVMEII+EDEE+QKEVDF+ IK KIDK ++D + ENASSG+ESS + DK F VKIVNRVEDN++ Q T SIKSLAILNQKSINEKLSSVKMKSKLLTMSMALKDSKVGAIPNRSTAIKTPKQPLYKSKFHPTAQG+ Sbjct: 1 MNDSAVSYIKCVSIPSENIKSQSKKHTQIFLKKFKLHKCNLLAKLNKKQINKSHIIRHFKESIEQLNKIKRERLQKIILLTKDLFENISDDETEVITEELDQF--NTIDDVLLTTQERQCETNITDKKSSN--NNQTLNKNVSIQNEQMDVDLLPNETRRDSIADVMEIIDEDEENQKEVDFEDNIKEIKIDKFPQVDIDNRKENASSGVESSSQEKPVDKIFGVKIVNRVEDNRSYPQPKTGSIKSLAILNQKSINEKLSSVKMKSKLLTMSMALKDSKVGAIPNRSTAIKTPKQPLYKSKFHPTAQGA 306 The following BLAST results are available for this feature:
BLAST of SMED30016224 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30016224 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30016224 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30016224 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30016224 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30016224 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30016224 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30016224 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30016224 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30016224 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30016224 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30016224 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30016224 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30016224 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 3
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30016224 ID=SMED30016224|Name=SMED30016224|organism=Schmidtea mediterranea sexual|type=transcript|length=1991bpback to top protein sequence of SMED30016224-orf-1 >SMED30016224-orf-1 ID=SMED30016224-orf-1|Name=SMED30016224-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=598bp MTDHAISYIKCVSVPSENIKTQSKKNIEIFLKDFKKRRRNLLTKLNKNQIback 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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