SMED30026893
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., 2020SMED30026893 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 1
Alignments
SMED30026893 aligns in the following genomic locations:
Homology
BLAST of SMED30026893 vs. TrEMBL
Match: A0A1I8GZZ1 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1) HSP 1 Score: 78.1814 bits (191), Expect = 2.021e-12 Identity = 69/284 (24.30%), Postives = 125/284 (44.01%), Query Frame = 1 Query: 52 YYDLNISESSKPSDILRYLRLGYTRLAFNRI---IDVKEGCXXXXXXXXXXXXXXXXXXXXXRRIAIPDFSFLINEEVKETALKLNTEVKLFSRLTLIASDHMQLSSFMREYGQLIKKYDVLACDARCSEVLNHMMEKVSFELLTFDLNSPVTILSHKIFKQCRD---RNVAVEINLSAALTSNAGRMNSVKFIHDL--GLYRCPSIITVTSGARSNLLIRNHLSLRCILSTMGLN-DKILKEINNNADKAINKGLARKHTIYGSAAIIQLNKIPGVVSVQVTN 876 YYDLN+ + + + + R LGY+ LAF + I V + S+ R+ +F EV+ET LK S+ R++ + ++ YD+LA + L+ E + +L+ DL SP F+ R R + +E++L L S R+ + + +L P + ++SGA + +R+ + + +++G+ DK ++ N + A+ L R+ T +G+ AI Q+ K+PGV SVQ+ + Sbjct: 9 YYDLNLLDRQE-AMVARSQNLGYSHLAFASVHTNIKVPPPPPSPLPTAAGSSGSGSVWSRTGSRVCRLTLAF--GPEVQETELK----------------------SYFRQHAKELEAYDLLAVLPKSQSALHACAETLPVDLIACDLGSPKLETFWSDFRDIRTAVRRGIKIEVSLQPMLHSQQSRILAATLLFELLTSARLSPDGLVLSSGALNQWDLRDPFGVCALAASLGVPPDKTRACLSANCESAVEHALVRRKTAHGALAIAQIAKLPGVSSVQLAD 267
BLAST of SMED30026893 vs. TrEMBL
Match: A0A1I8G0Y9 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1) HSP 1 Score: 78.1814 bits (191), Expect = 2.464e-12 Identity = 69/284 (24.30%), Postives = 125/284 (44.01%), Query Frame = 1 Query: 52 YYDLNISESSKPSDILRYLRLGYTRLAFNRI---IDVKEGCXXXXXXXXXXXXXXXXXXXXXRRIAIPDFSFLINEEVKETALKLNTEVKLFSRLTLIASDHMQLSSFMREYGQLIKKYDVLACDARCSEVLNHMMEKVSFELLTFDLNSPVTILSHKIFKQCRD---RNVAVEINLSAALTSNAGRMNSVKFIHDL--GLYRCPSIITVTSGARSNLLIRNHLSLRCILSTMGLN-DKILKEINNNADKAINKGLARKHTIYGSAAIIQLNKIPGVVSVQVTN 876 YYDLN+ + + + + R LGY+ LAF + I V + S+ R+ +F EV+ET LK S+ R++ + ++ YD+LA + L+ E + +L+ DL SP F+ R R + +E++L L S R+ + + +L P + ++SGA + +R+ + + +++G+ DK ++ N + A+ L R+ T +G+ AI Q+ K+PGV SVQ+ + Sbjct: 9 YYDLNLLDRQE-AMVARSQNLGYSHLAFASVHTNIKVPPPPPSPLPTAAGSSGSGSVWSRTGSRVCRLTLAF--GPEVQETELK----------------------SYFRQHAKELEAYDLLAVLPKSQSALHACAETLPVDLIACDLGSPKLETFWSDFRDIRTAVRRGIKIEVSLQPMLHSQQSRILAATLLFELLTSARLSPDGLVLSSGALNQWDLRDPFGVCALAASLGVPPDKTRACLSANCESAVEHALVRRKTAHGALAIAQIAKLPGVSSVQLAD 267
BLAST of SMED30026893 vs. TrEMBL
Match: A0A267FCV9 (Uncharacterized protein (Fragment) OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig013535g1 PE=4 SV=1) HSP 1 Score: 77.0258 bits (188), Expect = 5.074e-12 Identity = 52/194 (26.80%), Postives = 97/194 (50.00%), Query Frame = 1 Query: 322 RLTLIASDHMQ---LSSFMREYGQLIKKYDVLACDARCSEVLNHMMEKVSFELLTFDLNSPVTILSHKIFKQCRD---RNVAVEINLSAALTSNAGRMNSVKFIHDL--GLYRCPSIITVTSGARSNLLIRNHLSLRCILSTMGLN-DKILKEINNNADKAINKGLARKHTIYGSAAIIQLNKIPGVVSVQVTN 876 RLTL +Q L S+ R++ + ++ YD+LA + L+ E + +L+ DL SP F+ R R + +E++L L S R+ + + +L P + ++SGA + +R+ + + +++G+ DK ++ N + A+ L R+ T +G+ AI Q+ K+PGV SVQ+ + Sbjct: 64 RLTLAFGPEVQETELKSYFRQHAKELEAYDLLAVLPKSQSALHACAETLPVDLIACDLGSPKLETFWSDFRDIRTAVRRGIKIEVSLQPMLHSQQSRILAATLLFELLTSARLSPDGLVLSSGALNQWDLRDPFGVCALAASLGVPPDKTRACLSANCESAVEHALVRRKTAHGALAIAQIAKLPGVSSVQLAD 257
BLAST of SMED30026893 vs. TrEMBL
Match: A0A267FZD3 (Uncharacterized protein (Fragment) OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig013535g4 PE=4 SV=1) HSP 1 Score: 76.6406 bits (187), Expect = 6.290e-12 Identity = 52/194 (26.80%), Postives = 97/194 (50.00%), Query Frame = 1 Query: 322 RLTLIASDHMQ---LSSFMREYGQLIKKYDVLACDARCSEVLNHMMEKVSFELLTFDLNSPVTILSHKIFKQCRD---RNVAVEINLSAALTSNAGRMNSVKFIHDL--GLYRCPSIITVTSGARSNLLIRNHLSLRCILSTMGLN-DKILKEINNNADKAINKGLARKHTIYGSAAIIQLNKIPGVVSVQVTN 876 RLTL +Q L S+ R++ + ++ YD+LA + L+ E + +L+ DL SP F+ R R + +E++L L S R+ + + +L P + ++SGA + +R+ + + +++G+ DK ++ N + A+ L R+ T +G+ AI Q+ K+PGV SVQ+ + Sbjct: 61 RLTLAFGPEVQETELKSYFRQHAKELEAYDLLAVLPKSQSALHACAETLPVDLIACDLGSPKLETFWSDFRDIRTAVRRGIKIEVSLQPMLHSQQSRILAATLLFELLTSARLSPDGLVLSSGALNQWDLRDPFGVCALAASLGVPPDKTRACLSANCESAVEHALVRRKTAHGALAIAQIAKLPGVSSVQLAD 254
BLAST of SMED30026893 vs. TrEMBL
Match: H2KRR0 (Ribonuclease P/MRP protein subunit RPP1 OS=Clonorchis sinensis OX=79923 GN=CLF_106902 PE=4 SV=1) HSP 1 Score: 73.1738 bits (178), Expect = 9.793e-11 Identity = 58/209 (27.75%), Postives = 99/209 (47.37%), Query Frame = 1 Query: 310 KLFSRLTLIASDHMQLSSFMREYGQLIKKYDVLACDARCSEVLNHMMEKV-SFELLTFDLNSPVTI-LSHKIFKQCRDRNVAVEINLSAAL---TSNAGRMNSVKFIHDLGLYRCPS----IITVTSGARSNLLIRNHLSLRCILSTMGLNDKILKE--INNNADKAINKGLARKHTIYGSAAIIQLNKIPGVVSVQVTNKPDDLTNSP 903 +LF RL L+ S+ F RE+G+ + ++D+++ SE L E+ +F+L+ DL+S V LS K + + R + +E L L +S +++ F L C S I ++SGA +R L++ IL ++GL K L + + + GL R T +G+A +++L P VVS+ + SP Sbjct: 104 RLFKRLNLVCSEPSLAGLFFREFGETLNRFDIVSMCPSSSEALVFAYEQPDTFDLIAIDLDSQVDFRLSSKQYSLIQTRGLRLEFKLGPLLRPGSSGTTARSNLAFHFSSMLAGCRSSFSKCIVISSGATMGWEVRRPLAVVSILQSLGLQPKELAHHALTSGPCAVLTHGLTRSRTAHGAAVMLKLLSNPSVVSIGEAQDASEPCESP 312
BLAST of SMED30026893 vs. Ensembl Yeast
Match: RPP1 (Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; relocalizes to the cytosol in response to hypoxia [Source:SGD;Acc:S000001104]) HSP 1 Score: 46.595 bits (109), Expect = 2.824e-6 Identity = 42/145 (28.97%), Postives = 65/145 (44.83%), Query Frame = 1 Query: 301 TEVKLFSRLTLIASDHMQLSSFMREYGQLIKKYDVLACDARCSEVLNHMMEKVSFELLTFDLNSPV-TILSHKIFKQCRDRNVAVEINLSAALTSNAGRMNSVKFIHDLGLYRCPSIITVTSGARSNLLIRNHLSLRCILSTMGL 732 T +KL+SR+TLI D + S + + + +D++A + L + +LLTF S + T L HK C +R V +EI AL R V + + I + SGA S L RN L + ++ +GL Sbjct: 76 TGLKLYSRITLIIDDPSKGQSLSK----ISQAFDIVAALPISEKGLTLSTTNLDIDLLTFQYGSRLPTFLKHKSICSCVNRGVKLEIVYGYALRDVQARRQFVSNVRSVIRSSRSRGIVIGSGAMSPLECRNILGVTSLIKNLGL 216 The following BLAST results are available for this feature:
BLAST of SMED30026893 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30026893 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30026893 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30026893 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30026893 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30026893 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30026893 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30026893 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30026893 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30026893 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30026893 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 1
BLAST of SMED30026893 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30026893 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30026893 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 0
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30026893 ID=SMED30026893|Name=SMED30026893|organism=Schmidtea mediterranea sexual|type=transcript|length=1126bpback to top protein sequence of SMED30026893-orf-1 >SMED30026893-orf-1 ID=SMED30026893-orf-1|Name=SMED30026893-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=295bp MKFYYDLNISESSKPSDILRYLRLGYTRLAFNRIIDVKEGCLLDEDKKQSback 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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