SMED30009182
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., 2020SMED30009182 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 6
Alignments
SMED30009182 aligns in the following genomic locations:
Homology
BLAST of SMED30009182 vs. TrEMBL
Match: A0A1S3HVC5 (uncharacterized protein LOC106158513 OS=Lingula unguis OX=7574 GN=LOC106158513 PE=4 SV=1) HSP 1 Score: 70.8626 bits (172), Expect = 1.224e-8 Identity = 70/332 (21.08%), Postives = 154/332 (46.39%), Query Frame = 3 Query: 990 LKNYKTSKKNISLAQIMNETQKRFDNIIKTSTIDEIIKESDLLLAQLKLYSFTNEDLK--YESLRGNSFLNTNYLLVTIIKNKYSEISKYFQNILNDIKQQLKSVEDIKVYSTSLNEEILWIKEIGIPNLQHA-PKIASNVDDAESIARAFHNHLYIPGIKYLSKFQDI--SMETLPKEDNIE-----DFNTIFK-----FKEDLEIRRKLYSEIYQFHLFLAQILKWLTKTIKYLPIEQLDYLEN-ADGNEILELNES--WKRKIGQYLEINPPPKPAHIYLIECITERMTNVNFXXXXXXXXXXXXXXXXXF-NCTDVTVEDIRQVIEWK 1928 L+ Y + + Q++++ R+ +++ I+ +I E + L +L T+ +L+ Y+ + + + + + + E K ++ + ++ ++ Y + W++ +G P+LQ P IA ++ AE + F + Y K LS+ +++ E L ++ F+ F+ FK +LE R KLY +I+QF++ LA++ +W K ++++P+ YL + ++ L + W + L+ +PPP H+ ++ + ++ + + +L +++ LL L VT ED+R ++ WK Sbjct: 459 LQEYDPPMSSEEMQQLLSDMSDRYHEVMRELNIEPLIDECNECLEKL-----THPELQPVYQDVCHMTMFTDSSTTIHRHRQQLMESRKSLKSTWQQAEGKVIQAAELGQYQLQAEKVYRWLERVGFPSLQQQQPHIADSLKQAELVKEHFESGFYSAAKKALSEAEELISRAERLVVSGEMDIRQALSFSRKFESLVVEFKGNLEKRYKLYRDIHQFYVLLAKVSRWYHKALQFIPV----YLHRFPASHAVVSLTSTPDWDENVQYLLQYHPPPSALHLQDLKDTVPLVKSLKTRNKARLLAHRVNLLKNLLVGHGRVTPEDMRDILRWK 781
BLAST of SMED30009182 vs. TrEMBL
Match: A0A2T7PIX5 (Uncharacterized protein OS=Pomacea canaliculata OX=400727 GN=C0Q70_04623 PE=4 SV=1) HSP 1 Score: 65.0846 bits (157), Expect = 8.028e-7 Identity = 43/151 (28.48%), Postives = 71/151 (47.02%), Query Frame = 3 Query: 1365 PNLQHAPKIASNVDDAESIARAFHNHLYIPGIKYLSKFQDI--SMETLPKEDNIEDFNTIFKFKEDLEIR-----------RKLYSEIYQFHLFLAQILKWLTKTIKYLPIEQLDYLENADGNEILELNESWKRKIGQYLEINPPPKPAHI 1778 P L+ P +A+ + AE F LY P + L + +I M+ L K + + T F + L + + +Y ++ FHL L + LKW K +K+LP L+ L GN+IL++ W+ + +L +PPP+ HI Sbjct: 307 PLLKEHPCVANTLSQAELYRTHFTTSLYEPAKELLGQATEILEDMQRL-KARSPDPLVTSVTFTQRLTVTLQPFTQHLQGFQDVYVAVHIFHLLLEKALKWYRKVLKFLPDALLERLREVGGNQILQMPLEWQGAVESFLHRHPPPQEQHI 456
BLAST of SMED30009182 vs. Planmine SMEST
Match: SMESG000006804.1 (SMESG000006804.1) HSP 1 Score: 948.347 bits (2450), Expect = 0.000e+0 Identity = 522/572 (91.26%), Postives = 532/572 (93.01%), Query Frame = 3 Query: 732 FQIKNRLEKQKYFSLSIHI*VNSPAITIL*SNYFLSSLGTYLVHQIQA*LIIRQISLFNF*DIFNYLSLVLSNKNKVFQAEKDILKLKNYKTSKKNISLAQIMNETQKRFDNIIKTSTIDEIIKESDLLLAQLKLYSFTNEDLKYESLRGNSFLNTNYLLVTIIKNKYSEISKYFQNILNDIKQQLKSVEDIKVYSTSLNEEILWIKEIGIPNLQHAPKIASNVDDAESIARAFHNHLYIPGIKYLSKFQDISMETLPKEDNIEDFNTIFKFKEDLEIRRKLYSEIYQFHLFLAQILKWLTKTIKYLPIEQLDYLENADGNEILELNESWKRKIGQYLEINPPPKPAHIYLIECITERMTNVNFXXXXXXXXXXXXXXXXXFNCTDVTVEDIRQVIEWKFQMQFDESETESERSIEDLKYFKGNQKEISNTLKFDRITIKSKAKGFSDFIPQEKAINCEYANPVNATFDGPNYHYDLEAATRLNEYKTPRNNIQINRELIEIAEKTISESLQEAHLTREIDLRIPKYLKEEDELSIILNQLLYDIDXXXXXXXXXXXXXXXXKGDGLSQFQR 2447 F +KN L+ KY V+S +T + G L + + L+++Q DIFNYLSLVLSNKNKVFQAEKDILKLKNYKTSKKNISLAQIMNETQKRFDNIIKTSTIDEIIKESDLLLAQLKLYSFTNEDLKYESLRGNSFLNTNYLLVTIIKNKYSEISKYFQNILNDIKQQLKSVEDIKVYSTSLNEEILWIKEIGIPNLQHAPKIASNVDDAESIARAFHNHLYIPGI YLSKFQDISMETLPKEDNIEDFNTIFKFKEDLEIRRKLYSEIYQFHLFLAQILKWLTKTIKYLPIEQLDYLENADGNEILELNESWKRKIGQYLEINPPPKPAHIYLIECITERMTNVNFKKETLVLLNKLKLLLRLFNCTDVTVEDIRQVIEWKFQMQFDESETESERSIEDLKYFKGNQKEISNTLKFDRITIKSKAKGFSDFIPQEKAINCEYANPVNATFD PNYHYDLEAATRLNEYKTPRNNIQINRELIEIAEKTISESLQEAHLTREIDLRIPKYLKEEDELSIILNQLLYDIDSSAESLSENPSSSIFEKGDGLSQFQR Sbjct: 220 FLVKNSLDLNKY--------VDSQNLT--------NEFGGLLKYDHKTWLLLQQ-------DIFNYLSLVLSNKNKVFQAEKDILKLKNYKTSKKNISLAQIMNETQKRFDNIIKTSTIDEIIKESDLLLAQLKLYSFTNEDLKYESLRGNSFLNTNYLLVTIIKNKYSEISKYFQNILNDIKQQLKSVEDIKVYSTSLNEEILWIKEIGIPNLQHAPKIASNVDDAESIARAFHNHLYIPGIIYLSKFQDISMETLPKEDNIEDFNTIFKFKEDLEIRRKLYSEIYQFHLFLAQILKWLTKTIKYLPIEQLDYLENADGNEILELNESWKRKIGQYLEINPPPKPAHIYLIECITERMTNVNFKKETLVLLNKLKLLLRLFNCTDVTVEDIRQVIEWKFQMQFDESETESERSIEDLKYFKGNQKEISNTLKFDRITIKSKAKGFSDFIPQEKAINCEYANPVNATFDSPNYHYDLEAATRLNEYKTPRNNIQINRELIEIAEKTISESLQEAHLTREIDLRIPKYLKEEDELSIILNQLLYDIDSSAESLSENPSSSIFEKGDGLSQFQR 768
BLAST of SMED30009182 vs. Planmine SMEST
Match: SMESG000066109.1 (SMESG000066109.1) HSP 1 Score: 44.669 bits (104), Expect = 1.501e-8 Identity = 26/76 (34.21%), Postives = 42/76 (55.26%), Query Frame = -2 Query: 347 SDLNVRKF*KTLVTT----LSPYILETKLESAECKMPEKKLSPEVRNGTYYNKFLMCIIIWNMKGFLKRDFAASDV 562 +D + +F +VT S Y+ E+K ES+E + P+K+ ++ GT + + LM I W+ G +K DFA DV Sbjct: 807 NDQHGSRFLDNIVTVDEIPFSLYLPESKKESSEWRFPDKRAPRKMLAGTPHRRCLMLTIFWDSSGVIKVDFAEKDV 882 HSP 2 Score: 34.2686 bits (77), Expect = 1.501e-8 Identity = 27/80 (33.75%), Postives = 40/80 (50.00%), Query Frame = -1 Query: 549 IFDLENPGRSVEVRN----------VKRDRCIVTRDSAQRLNISKSM*YNLLNETGSRKLCS----LFLLGDMQ*KRFKC 746 +FD E GR VE+ + V+ +R I ++ +RLNIS +L + G+RKL S FL G+M R +C Sbjct: 720 VFDDERSGRPVEIDHENIAKRCEIIVRDERWITLKELQRRLNISDGKVREILKDLGTRKLASRYFPRFLSGEMCQVRLEC 799 The following BLAST results are available for this feature:
BLAST of SMED30009182 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30009182 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30009182 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30009182 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30009182 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30009182 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30009182 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30009182 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 2
BLAST of SMED30009182 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30009182 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30009182 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30009182 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30009182 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30009182 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 >SMED30009182 ID=SMED30009182|Name=SMED30009182|organism=Schmidtea mediterranea sexual|type=transcript|length=2537bpback to top protein sequence of SMED30009182-orf-1 >SMED30009182-orf-1 ID=SMED30009182-orf-1|Name=SMED30009182-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=471bp MNETQKRFDNIIKTSTIDEIIKESDLLLAQLKLYSFTNEDLKYESLRGNSback to top Annotated Terms
The following terms have been associated with this transcript:
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