SMED30020243
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., 2020SMED30020243 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 7
Homology
BLAST of SMED30020243 vs. Planmine SMEST
Match: SMESG000003594.1 (SMESG000003594.1) HSP 1 Score: 281.567 bits (719), Expect = 1.938e-87 Identity = 133/145 (91.72%), Postives = 137/145 (94.48%), Query Frame = 1 Query: 1387 MQPGYKIPKLTSQRSEKSNPSILNNDDKSHQECRRKYDRLVVEHERTLGTWFAPKAVKALHKQIHRLTRCREDLIAENRAQRIIINNQSAVLVASFNEAELTKRLAGRDLAIKLNIIPANHIPEKATTGPPQTPKTSKKHNPSKN 1821 MQPGYKIPKLTSQRSEKSN SILNNDDKSHQECRRKYD+LVVEHERTL TWFAP+AVKALHKQIHRLTRCREDLIAENRAQRI+INNQSAVL ASFNE EL KRLAGRDLAIKLNIIPA H+PE ATTGPPQ PKTSKKHNPSKN Sbjct: 1 MQPGYKIPKLTSQRSEKSNLSILNNDDKSHQECRRKYDQLVVEHERTLSTWFAPEAVKALHKQIHRLTRCREDLIAENRAQRIVINNQSAVLTASFNETELKKRLAGRDLAIKLNIIPAEHVPETATTGPPQMPKTSKKHNPSKN 145
BLAST of SMED30020243 vs. Planmine SMEST
Match: SMESG000036778.1 (SMESG000036778.1) HSP 1 Score: 249.595 bits (636), Expect = 6.898e-70 Identity = 118/133 (88.72%), Postives = 124/133 (93.23%), Query Frame = 1 Query: 1423 QRSEKSNPSILNNDDKSHQECRRKYDRLVVEHERTLGTWFAPKAVKALHKQIHRLTRCREDLIAENRAQRIIINNQSAVLVASFNEAELTKRLAGRDLAIKLNIIPANHIPEKATTGPPQTPKTSKKHNPSKN 1821 + SEKS PSILNNDDKSHQECRRKY++LVVEHERTLGTWFAP+AVKALHKQIHRLTRCREDLIAENRAQRI+INNQSAVL ASFNE EL KRLAGRDLAIKLNIIPA H+PE ATTGPPQ PK SKKHNPSKN Sbjct: 576 KESEKSKPSILNNDDKSHQECRRKYEQLVVEHERTLGTWFAPEAVKALHKQIHRLTRCREDLIAENRAQRIVINNQSAVLTASFNETELKKRLAGRDLAIKLNIIPAEHVPETATTGPPQMPKISKKHNPSKN 708
BLAST of SMED30020243 vs. Planmine SMEST
Match: SMESG000036854.1 (SMESG000036854.1) HSP 1 Score: 221.476 bits (563), Expect = 2.906e-65 Identity = 105/122 (86.07%), Postives = 113/122 (92.62%), Query Frame = 1 Query: 1456 NNDDKSHQECRRKYDRLVVEHERTLGTWFAPKAVKALHKQIHRLTRCREDLIAENRAQRIIINNQSAVLVASFNEAELTKRLAGRDLAIKLNIIPANHIPEKATTGPPQTPKTSKKHNPSKN 1821 NN+D +HQEC+RKY +LV EHERTLGTWFAP+AVKALH QIHRLTRCREDLIAE+RAQRIIINNQSAVLVASFNE ELTKRLA RDLAIKLN+IPANHI K TTGPPQTPKT+KKHNPSKN Sbjct: 142 NNNDNTHQECQRKYAQLVAEHERTLGTWFAPEAVKALHNQIHRLTRCREDLIAESRAQRIIINNQSAVLVASFNEDELTKRLASRDLAIKLNLIPANHITGKGTTGPPQTPKTNKKHNPSKN 263
BLAST of SMED30020243 vs. Planmine SMEST
Match: SMESG000077490.1 (SMESG000077490.1) HSP 1 Score: 214.542 bits (545), Expect = 4.858e-64 Identity = 102/146 (69.86%), Postives = 120/146 (82.19%), Query Frame = 1 Query: 1387 MQPGYKIPKLTSQRSEKSNPSILNNDDKSHQECRRKYDRLVVEHERTLGTWFAPKAVKALHKQIHRLTRCREDLIAENRAQRIIINNQSAVLVASFNEAELTKRLAGRDLAIKLNIIPANHIPEKATTGPPQTPKTSKKHNPSKNR 1824 MQ GYKIPKL+ + + S N+ H C+++Y++L+ EHERTLGTWFAP+ VKALHKQIHRLTRCREDLIAENRAQRI+IN+QSAVL+ASF E ELTKRLA RDLA+KLN+IPAN +PE+ GP QTPKTSKKHNPSKNR Sbjct: 1 MQSGYKIPKLSPAKPKLSTQPNTQNEQLDHIPCQQRYNKLLAEHERTLGTWFAPEVVKALHKQIHRLTRCREDLIAENRAQRIVINDQSAVLIASFTETELTKRLASRDLAVKLNLIPANDLPERNQIGPAQTPKTSKKHNPSKNR 146
BLAST of SMED30020243 vs. Planmine SMEST
Match: SMESG000028417.1 (SMESG000028417.1) HSP 1 Score: 209.92 bits (533), Expect = 3.099e-61 Identity = 100/145 (68.97%), Postives = 117/145 (80.69%), Query Frame = 1 Query: 1387 MQPGYKIPKLTSQRSEKSNPSILNNDDKSHQECRRKYDRLVVEHERTLGTWFAPKAVKALHKQIHRLTRCREDLIAENRAQRIIINNQSAVLVASFNEAELTKRLAGRDLAIKLNIIPANHIPEKATTGPPQTPKTSKKHNPSKN 1821 MQPGYKIPKL+S+ PS +N H C++KY++L EHERTLGTWFAP+AVK L +IHRL+RCREDLIAENRAQRIIIN+QSA LVASF E ELTKRLAGRDL +KLN+IP NH+PE+ GP QTP+TSKKH+PSKN Sbjct: 1 MQPGYKIPKLSSK------PSAINTQ-MDHSSCQQKYNKLFAEHERTLGTWFAPEAVKILQDKIHRLSRCREDLIAENRAQRIIINDQSADLVASFTEVELTKRLAGRDLVVKLNLIPVNHLPEETQAGPAQTPRTSKKHHPSKN 138 The following BLAST results are available for this feature:
BLAST of SMED30020243 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30020243 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30020243 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30020243 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30020243 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30020243 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30020243 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30020243 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30020243 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30020243 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30020243 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30020243 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30020243 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30020243 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 >SMED30020243 ID=SMED30020243|Name=SMED30020243|organism=Schmidtea mediterranea sexual|type=transcript|length=2949bpback to top protein sequence of SMED30020243-orf-1 >SMED30020243-orf-1 ID=SMED30020243-orf-1|Name=SMED30020243-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=159bp MQPGYKIPKLTSQRSEKSNPSILNNDDKSHQECRRKYDRLVVEHERTLGTback to top Annotated Terms
The following terms have been associated with this transcript:
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