SMED30024359
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., 2020SMED30024359 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 4
Alignments
SMED30024359 aligns in the following genomic locations:
Homology
BLAST of SMED30024359 vs. TrEMBL
Match: B3S3S4 (UBX domain-containing protein OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_58828 PE=4 SV=1) HSP 1 Score: 65.0846 bits (157), Expect = 1.334e-7 Identity = 83/323 (25.70%), Postives = 150/323 (46.44%), Query Frame = 3 Query: 171 MTPSF----LKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKENVCNDIVCEYLIKEDWPIWPIDISNQNEKQQFFNLMSNRLDAKEIFA--------HPLPMLMMCIREGLSTFITEFMCSTDPMMNVGKLF-DCGGAFQTDK-----ELKMNIINSVXXXXXXXXXXXXXXXXXXXXXXXXXXXXILEEQERISKEN--LR------LVKESNRSNAIEFAKSQLVDVSPSPSNFT-----FRIRLPNGQTLNREFNESQTVNDVLYFIESNGHLRSEIKVMFSYPAKNMCEINDKLVTLKDSGASKREAVNVQ 1046 M P F LK +E V R KP VY+H+SK +F +C++ + YL +++ W D++ + +++ F+L ++ A F+ +P+ +++ ++ L E M++ +LF GAF+ + ELK R++ + + + + + +R A EE+ R+ KE LR L++E R A + +Q + +P P N T F IRLP G+ L+R+F TV D+L ++ SNG L E KV+ ++P + + + D ++L D+G ++ + VQ Sbjct: 249 MHPLFFIGPLKDALDECFKGNVNQR----KPLFVYIHNSKSVQVNIFCSNVLCSESIVNYL-NQNYVNWAWDVTLPSNREKCFSLCTSLFGATATFSLERFEDDDYPIMLVITKVKSSL-----EISRVLQAKMSLDELFTGLMGAFEDYRHVLHNELKEEEAREARQRFKKLQDAEYEASLKADRAKAEQRAAEEEERNRLEKEAQLLREHEEQALMEEVKRKEAERQSLAQSIPQAP-PDNCTDDVIKFLIRLPGGERLSRKFYSRNTVKDLLNYVASNGFLDFEFKVVTNFPKREISAL-DPHLSLGDAGFLSQDTLFVQ 559
BLAST of SMED30024359 vs. TrEMBL
Match: A0A369RZQ7 (FAS-associated factor 1 OS=Trichoplax sp. H2 OX=287889 GN=TrispH2_008101 PE=4 SV=1) HSP 1 Score: 64.6994 bits (156), Expect = 2.125e-7 Identity = 83/323 (25.70%), Postives = 150/323 (46.44%), Query Frame = 3 Query: 171 MTPSF----LKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKENVCNDIVCEYLIKEDWPIWPIDISNQNEKQQFFNLMSNRLDAKEIFA--------HPLPMLMMCIREGLSTFITEFMCSTDPMMNVGKLF-DCGGAFQTDK-----ELKMNIINSVXXXXXXXXXXXXXXXXXXXXXXXXXXXXILEEQERISKEN--LR------LVKESNRSNAIEFAKSQLVDVSPSPSNFT-----FRIRLPNGQTLNREFNESQTVNDVLYFIESNGHLRSEIKVMFSYPAKNMCEINDKLVTLKDSGASKREAVNVQ 1046 M P F LK +E V R KP VY+H+SK +F +C++ + YL +++ W D++ + +++ F+L ++ A F+ +P+ +++ ++ L E M++ +LF GAF+ + ELK R++ + + + + + +R A EE+ R+ KE LR L++E R A + +Q + +P P N T F IRLP G+ L+R+F TV D+L ++ SNG L E KV+ ++P + + + D ++L D+G ++ + VQ Sbjct: 311 MHPLFFIGPLKDALDECFKGNVNQR----KPLFVYIHNSKSVQVNIFCSNVLCSESIVNYL-NQNYVNWAWDVTLPSNREKCFSLCTSLFGATATFSLERFEDDDYPIMLVITKVKSSL-----EISRVLQAKMSLDELFTGLMGAFEDYRHVLHNELKEEEAREARQRFKKLQDAEYEASLKADRAKAEQRAAEEEERNRLEKEAQLLREHEEQALMEEVKRKEAERQSLAQSIPQAP-PDNCTDDVIKFLIRLPGGERLSRKFYSRNTVKDLLNYVASNGFLDFEFKVVTNFPKREISAL-DPHLSLGDAGFLSQDTLFVQ 621
BLAST of SMED30024359 vs. Planmine SMEST
Match: SMESG000077910.1 (SMESG000077910.1) HSP 1 Score: 594.734 bits (1532), Expect = 0.000e+0 Identity = 319/319 (100.00%), Postives = 319/319 (100.00%), Query Frame = 3 Query: 96 MANENFVDCNLRFFEYLENSIGKNMMTPSFLKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKENVCNDIVCEYLIKEDWPIWPIDISNQNEKQQFFNLMSNRLDAKEIFAHPLPMLMMCIREGLSTFITEFMCSTDPMMNVGKLFDCGGAFQTDKELKMNIINSVXXXXXXXXXXXXXXXXXXXXXXXXXXXXILEEQERISKENLRLVKESNRSNAIEFAKSQLVDVSPSPSNFTFRIRLPNGQTLNREFNESQTVNDVLYFIESNGHLRSEIKVMFSYPAKNMCEINDKLVTLKDSGASKREAVNVQKL 1052 MANENFVDCNLRFFEYLENSIGKNMMTPSFLKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKENVCNDIVCEYLIKEDWPIWPIDISNQNEKQQFFNLMSNRLDAKEIFAHPLPMLMMCIREGLSTFITEFMCSTDPMMNVGKLFDCGGAFQTDKELKMNIINSVREKSLIAKKKKESELEEKRQKQELERKAILEEQERISKENLRLVKESNRSNAIEFAKSQLVDVSPSPSNFTFRIRLPNGQTLNREFNESQTVNDVLYFIESNGHLRSEIKVMFSYPAKNMCEINDKLVTLKDSGASKREAVNVQKL Sbjct: 1 MANENFVDCNLRFFEYLENSIGKNMMTPSFLKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKENVCNDIVCEYLIKEDWPIWPIDISNQNEKQQFFNLMSNRLDAKEIFAHPLPMLMMCIREGLSTFITEFMCSTDPMMNVGKLFDCGGAFQTDKELKMNIINSVREKSLIAKKKKESELEEKRQKQELERKAILEEQERISKENLRLVKESNRSNAIEFAKSQLVDVSPSPSNFTFRIRLPNGQTLNREFNESQTVNDVLYFIESNGHLRSEIKVMFSYPAKNMCEINDKLVTLKDSGASKREAVNVQKL 319
BLAST of SMED30024359 vs. Planmine SMEST
Match: SMESG000077914.1 (SMESG000077914.1) HSP 1 Score: 533.487 bits (1373), Expect = 0.000e+0 Identity = 272/319 (85.27%), Postives = 296/319 (92.79%), Query Frame = 3 Query: 96 MANENFVDCNLRFFEYLENSIGKNMMTPSFLKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKENVCNDIVCEYLIKEDWPIWPIDISNQNEKQQFFNLMSNRLDAKEIFAHPLPMLMMCIREGLSTFITEFMCSTDPMMNVGKLFDCGGAFQTDKELKMNIINSVXXXXXXXXXXXXXXXXXXXXXXXXXXXXILEEQERISKENLRLVKESNRSNAIEFAKSQLVDVSPSPSNFTFRIRLPNGQTLNREFNESQTVNDVLYFIESNGHLRSEIKVMFSYPAKNMCEINDKLVTLKDSGASKREAVNVQKL 1052 M NENFVDCNLRFFEYLENSIGK+MMTPSFLKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKEN+CN+IVCEYLIKEDWPIWPIDISNQNEKQQFFNLMSNRLDAKEIFA+PLPMLMMCIREGLST I E+M S DP MNV KLFDCG FQT+KELKMN+INS +KS I++K K +E+E+ + EL++KA+LE+ ER+ KENL+ V+ESNRSNAIEFAKSQLVDVSPSPSNFTFRIRLPNGQTLNREF+ESQTVNDVLYFIESNGHLRSEIKVMFSYPAKNMCEINDKL+ LKDSGASK EA+NVQKL Sbjct: 1 MTNENFVDCNLRFFEYLENSIGKDMMTPSFLKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKENICNEIVCEYLIKEDWPIWPIDISNQNEKQQFFNLMSNRLDAKEIFAYPLPMLMMCIREGLSTVIREYMWSPDPTMNVRKLFDCGVTFQTNKELKMNMINSSSKKSSISRKIKNAEIEKDLKDLELKKKALLEQLERLDKENLQTVEESNRSNAIEFAKSQLVDVSPSPSNFTFRIRLPNGQTLNREFSESQTVNDVLYFIESNGHLRSEIKVMFSYPAKNMCEINDKLMALKDSGASKHEALNVQKL 319
BLAST of SMED30024359 vs. Planmine SMEST
Match: SMESG000039424.1 (SMESG000039424.1) HSP 1 Score: 498.434 bits (1282), Expect = 4.937e-177 Identity = 256/305 (83.93%), Postives = 272/305 (89.18%), Query Frame = 3 Query: 138 EYLENSIGKNMMTPSFLKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKENVCNDIVCEYLIKEDWPIWPIDISNQNEKQQFFNLMSNRLDAKEIFAHPLPMLMMCIREGLSTFITEFMCSTDPMMNVGKLFDCGGAFQTDKELKMNIINSVXXXXXXXXXXXXXXXXXXXXXXXXXXXXILEEQERISKENLRLVKESNRSNAIEFAKSQLVDVSPSPSNFTFRIRLPNGQTLNREFNESQTVNDVLYFIESNGHLRSEIKVMFSYPAKNMCEINDKLVTLKDSGASKREAVNVQKL 1052 E NSIGK+MMTPSFLKC F+EA+MSTVANRPATSKPFIVYMHDS DDMH LFF ENVCN+IVCEYLIKEDWPIWPID+SNQNEKQQFFNLMSNRL+AKEIFA+PLPMLMMCIREGLSTFITE+MCS DPMMNVGKLFDCGGAFQTDKELK+N+IN EKRQK+ELERKAILEEQERI KENLRLV+ESNR+NAIEFAK QLVD SPS SNF FRIRLPNGQ LNR+F+E+QTVNDVLYFIES GHLRSEIKVMFSYPAKNMCEINDKLVTLKDSGASKREAVNVQKL Sbjct: 78 EECTNSIGKDMMTPSFLKCDFDEALMSTVANRPATSKPFIVYMHDSNDDMHSLFFMENVCNEIVCEYLIKEDWPIWPIDLSNQNEKQQFFNLMSNRLEAKEIFAYPLPMLMMCIREGLSTFITEYMCSPDPMMNVGKLFDCGGAFQTDKELKINMINK-----------------EKRQKEELERKAILEEQERIEKENLRLVEESNRNNAIEFAKGQLVDASPSHSNFIFRIRLPNGQILNRQFSETQTVNDVLYFIESTGHLRSEIKVMFSYPAKNMCEINDKLVTLKDSGASKREAVNVQKL 365
BLAST of SMED30024359 vs. Planmine SMEST
Match: SMESG000055685.1 (SMESG000055685.1) HSP 1 Score: 202.216 bits (513), Expect = 6.754e-63 Identity = 98/129 (75.97%), Postives = 110/129 (85.27%), Query Frame = 3 Query: 78 LLSNLSMANENFVDCNLRFFEYLENSIGKNMMTPSFLKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKENVCNDIVCEYLIKEDWPIWPIDISNQNEKQQFF---NLMSNRLDAKEIFAHP 455 +S+L + NENFVDCNLRFFEYLENSIGK+MMTPSFLKCGF+EA+MSTVANRPATSKPFIVYMHDS DDMH LFF ENVCN+IVCEYLIKE WPI PID+SNQNEKQQ F N+ N +D ++ HP Sbjct: 5 FISDLIVTNENFVDCNLRFFEYLENSIGKDMMTPSFLKCGFDEALMSTVANRPATSKPFIVYMHDSNDDMHSLFFMENVCNEIVCEYLIKEYWPIRPIDLSNQNEKQQLFSIKNMYRNLIDNQQPI-HP 132
BLAST of SMED30024359 vs. Planmine SMEST
Match: SMESG000055685.1 (SMESG000055685.1) HSP 1 Score: 154.836 bits (390), Expect = 3.899e-45 Identity = 75/99 (75.76%), Postives = 83/99 (83.84%), Query Frame = 3 Query: 168 MMTPSFLKCGFNEAVMSTVANRPATSKPFIVYMHDSKDDMHRLFFKENVCNDIVCEYLIKEDWPIWPIDISNQNEKQQFF---NLMSNRLDAKEIFAHP 455 MMTPSFLKCGF+EA+MSTVANRPATSKPFIVYMHDS DDMH LFF ENVCN+IVCEYLIKE WPI PID+SNQNEKQQ F N+ N +D ++ HP Sbjct: 1 MMTPSFLKCGFDEALMSTVANRPATSKPFIVYMHDSNDDMHSLFFMENVCNEIVCEYLIKEYWPIRPIDLSNQNEKQQLFSIKNMYRNLIDNQQPI-HP 98 The following BLAST results are available for this feature:
BLAST of SMED30024359 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30024359 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30024359 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30024359 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30024359 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30024359 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30024359 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30024359 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 2
BLAST of SMED30024359 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30024359 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30024359 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30024359 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30024359 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30024359 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 >SMED30024359 ID=SMED30024359|Name=SMED30024359|organism=Schmidtea mediterranea sexual|type=transcript|length=1245bpback to top protein sequence of SMED30024359-orf-1 >SMED30024359-orf-1 ID=SMED30024359-orf-1|Name=SMED30024359-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=320bp MANENFVDCNLRFFEYLENSIGKNMMTPSFLKCGFNEAVMSTVANRPATSback 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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