SMED30035897
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., 2020SMED30035897 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Homology
BLAST of SMED30035897 vs. Planmine SMEST
Match: SMESG000063550.1 (SMESG000063550.1) HSP 1 Score: 204.142 bits (518), Expect = 5.888e-66 Identity = 95/105 (90.48%), Postives = 99/105 (94.29%), Query Frame = 3 Query: 5310 KKAMKIELNLKSAQTKSESFAIVTETRERSKSPVRNNRVQQASNPSPKFRPKFESNKTIDIQNDGKESPIQCSYCQRPGHYVNQCWLKNRSQKSPIQIRCDHCQK 5624 +KAMKIELNLKSAQT SESFAI+TETRERS SP RNNR+QQAS+PS KFRPKFE NKTIDIQNDGKESPIQCSYCQR GHYVNQCWLKNRSQKSPIQIRCDHCQK Sbjct: 142 QKAMKIELNLKSAQTMSESFAIITETRERSISPFRNNRLQQASSPSSKFRPKFELNKTIDIQNDGKESPIQCSYCQRLGHYVNQCWLKNRSQKSPIQIRCDHCQK 246 HSP 2 Score: 69.3218 bits (168), Expect = 5.888e-66 Identity = 38/69 (55.07%), Postives = 48/69 (69.57%), Query Frame = 2 Query: 5003 KRRVAKEQ*LLTGCVSHEIDWGDIKTLT*QKFYNRVQYSDESVSEFAYHS-TVAENAFEVKPDQADVAK 5206 +R +A + L ++ ++ GDIK + QKFYN VQ SDESVSEFAYH +AE A+EVKPDQADV K Sbjct: 73 QRSIANDWTKLKDALAAKLIGGDIKRIMRQKFYNGVQKSDESVSEFAYHLINLAEKAYEVKPDQADVTK 141
BLAST of SMED30035897 vs. Planmine SMEST
Match: SMESG000056661.1 (SMESG000056661.1) HSP 1 Score: 204.142 bits (518), Expect = 8.568e-65 Identity = 121/241 (50.21%), Postives = 152/241 (63.07%), Query Frame = 3 Query: 5217 E*LQNQFLTGVKKEIKKALCYVDFNDFDEFIKKAMKIELNLKSAQTKSESFAIVTETRERSKSPVRNNRVQQASNPSPKFRPKFESNKTIDIQNDGKESPIQCSYCQRPGHYVNQCWLKNRSQKSPIQIRCDHCQKM*HDSNQCWFKKNVKQSPKQMPSDWVXXXXXXXXXXXXXXDQQINVNSQYYIYGRKWHISRNCFAXXXXXXXXXXXQRDKLNLQGQIQCH*CRGYGHIA*SCPKN 5939 E LQ+QFLT V+KEIKKALCYVDFN+FDE IKKAMKIELNLK+ Q K+ESF + E+R+RS P++NN Q++++PSPKFR KFE K+ + N +E P+QCS HCQK+ H+ N WFK N ++SP + Q+IN N Q Y G++ H+SRNCFARSRSPST PS Q D++NLQG IQCH CRGYGH+A SCP+N Sbjct: 137 ELLQDQFLTEVRKEIKKALCYVDFNNFDELIKKAMKIELNLKTTQPKAESFTTIVESRDRSICPIKNNLFQKSTSPSPKFRVKFEPKKSTNSPNKERERPVQCS----------------------------HCQKLGHNINPFWFKNNSRRSPSPV-------------------HQRINDNIQCYNCGKRGHVSRNCFARSRSPSTSPSPQSDRVNLQGGIQCHSCRGYGHMARSCPRN 330 HSP 2 Score: 50.8322 bits (120), Expect = 8.568e-65 Identity = 20/28 (71.43%), Postives = 23/28 (82.14%), Query Frame = 1 Query: 4918 KIPVNQFGGDSVELVDFIADYYMYTTIY 5001 K+PV Q+GGD VE VDF+ADYYMY T Y Sbjct: 40 KLPVQQYGGDPVEFVDFMADYYMYATAY 67 HSP 3 Score: 33.8834 bits (76), Expect = 8.568e-65 Identity = 19/45 (42.22%), Postives = 27/45 (60.00%), Query Frame = 2 Query: 4994 QSTKRRVAKEQ*LLTGCVSHEIDWGDIKTLT*QKFYNRVQYSDES 5128 Q KR +A + L ++ ++ GDI+ + QKFYNRVQ DES Sbjct: 92 QIDKRLIANDWTKLKDALASKLIGGDIERIMRQKFYNRVQRPDES 136 HSP 4 Score: 21.9422 bits (45), Expect = 8.568e-65 Identity = 9/14 (64.29%), Postives = 12/14 (85.71%), Query Frame = 2 Query: 4838 SNTGNNDKTLVSTV 4879 SN+ NND+T VST+ Sbjct: 3 SNSNNNDQTPVSTM 16
BLAST of SMED30035897 vs. Planmine SMEST
Match: SMESG000056661.1 (SMESG000056661.1) HSP 1 Score: 204.142 bits (518), Expect = 1.087e-64 Identity = 121/241 (50.21%), Postives = 152/241 (63.07%), Query Frame = 3 Query: 5217 E*LQNQFLTGVKKEIKKALCYVDFNDFDEFIKKAMKIELNLKSAQTKSESFAIVTETRERSKSPVRNNRVQQASNPSPKFRPKFESNKTIDIQNDGKESPIQCSYCQRPGHYVNQCWLKNRSQKSPIQIRCDHCQKM*HDSNQCWFKKNVKQSPKQMPSDWVXXXXXXXXXXXXXXDQQINVNSQYYIYGRKWHISRNCFAXXXXXXXXXXXQRDKLNLQGQIQCH*CRGYGHIA*SCPKN 5939 E LQ+QFLT V+KEIKKALCYVDFN+FDE IKKAMKIELNLK+ Q K+ESF + E+R+RS P++NN Q++++PSPKFR KFE K+ + N +E P+QCS HCQK+ H+ N WFK N ++SP + Q+IN N Q Y G++ H+SRNCFARSRSPST PS Q D++NLQG IQCH CRGYGH+A SCP+N Sbjct: 137 ELLQDQFLTEVRKEIKKALCYVDFNNFDELIKKAMKIELNLKTTQPKAESFTTIVESRDRSICPIKNNLFQKSTSPSPKFRVKFEPKKSTNSPNKERERPVQCS----------------------------HCQKLGHNINPFWFKNNSRRSPSPV-------------------HQRINDNIQCYNCGKRGHVSRNCFARSRSPSTSPSPQSDRVNLQGGIQCHSCRGYGHMARSCPRN 330 HSP 2 Score: 50.8322 bits (120), Expect = 1.087e-64 Identity = 20/28 (71.43%), Postives = 23/28 (82.14%), Query Frame = 1 Query: 4918 KIPVNQFGGDSVELVDFIADYYMYTTIY 5001 K+PV Q+GGD VE VDF+ADYYMY T Y Sbjct: 40 KLPVQQYGGDPVEFVDFMADYYMYATAY 67 HSP 3 Score: 33.8834 bits (76), Expect = 1.087e-64 Identity = 19/45 (42.22%), Postives = 27/45 (60.00%), Query Frame = 2 Query: 4994 QSTKRRVAKEQ*LLTGCVSHEIDWGDIKTLT*QKFYNRVQYSDES 5128 Q KR +A + L ++ ++ GDI+ + QKFYNRVQ DES Sbjct: 92 QIDKRLIANDWTKLKDALASKLIGGDIERIMRQKFYNRVQRPDES 136 HSP 4 Score: 21.557 bits (44), Expect = 1.087e-64 Identity = 9/14 (64.29%), Postives = 12/14 (85.71%), Query Frame = 2 Query: 4838 SNTGNNDKTLVSTV 4879 SN+ NND+T VST+ Sbjct: 3 SNSNNNDQTPVSTM 16
BLAST of SMED30035897 vs. Planmine SMEST
Match: SMESG000047220.1 (SMESG000047220.1) HSP 1 Score: 235.728 bits (600), Expect = 1.299e-64 Identity = 126/218 (57.80%), Postives = 170/218 (77.98%), Query Frame = 3 Query: 5211 VKE*LQNQFLTGVKKEIKKALCYVDFNDFDEFIKKAMKIELNLKSAQTKSESFAIVTETRERSKSPVRNNRVQQASNPSPKFRPKFESNKTIDIQNDGKESPIQCSYCQRPGHYVNQCWLKNRSQKSPIQIRCDHCQKM*HDSNQCWFKKNVKQSPKQMPSDWVXXXXXXXXXXXXXXDQQINVNSQYYIYGRKWHISRNCFAXXXXXXXXXXXQRDK 5864 VKE LQ+Q LTGV+KEIKKALCYVDFN+FDE IKKAMKIELNLK+ Q K+ESF + E+R RS SP++NN Q++++PSP FR KFE K+ + + ++ P+QCS+CQ+ GH +NQCW +N +Q+SP ++CDHCQ+ H ++Q WFK ++SPK+M DW+KG+G K F+K +TN+Q IN N QYY +G++ H+SRNC+ARSRSPST S QRD+ Sbjct: 141 VKELLQDQLLTGVRKEIKKALCYVDFNNFDELIKKAMKIELNLKTTQPKAESFTTIDESRVRSISPIKNNLFQKSTSPSPNFRVKFEPRKSTNSPKEERDRPVQCSHCQKLGHNINQCWFRNNAQRSPSSVQCDHCQRKVHSNSQSWFKNEEQRSPKRMWPDWLKGDGGKRFSKMSTNNQLINDNIQYYNWGKRGHVSRNCYARSRSPSTSSSPQRDR 358
BLAST of SMED30035897 vs. Planmine SMEST
Match: SMESG000047220.1 (SMESG000047220.1) HSP 1 Score: 235.728 bits (600), Expect = 1.597e-64 Identity = 126/218 (57.80%), Postives = 170/218 (77.98%), Query Frame = 3 Query: 5211 VKE*LQNQFLTGVKKEIKKALCYVDFNDFDEFIKKAMKIELNLKSAQTKSESFAIVTETRERSKSPVRNNRVQQASNPSPKFRPKFESNKTIDIQNDGKESPIQCSYCQRPGHYVNQCWLKNRSQKSPIQIRCDHCQKM*HDSNQCWFKKNVKQSPKQMPSDWVXXXXXXXXXXXXXXDQQINVNSQYYIYGRKWHISRNCFAXXXXXXXXXXXQRDK 5864 VKE LQ+Q LTGV+KEIKKALCYVDFN+FDE IKKAMKIELNLK+ Q K+ESF + E+R RS SP++NN Q++++PSP FR KFE K+ + + ++ P+QCS+CQ+ GH +NQCW +N +Q+SP ++CDHCQ+ H ++Q WFK ++SPK+M DW+KG+G K F+K +TN+Q IN N QYY +G++ H+SRNC+ARSRSPST S QRD+ Sbjct: 147 VKELLQDQLLTGVRKEIKKALCYVDFNNFDELIKKAMKIELNLKTTQPKAESFTTIDESRVRSISPIKNNLFQKSTSPSPNFRVKFEPRKSTNSPKEERDRPVQCSHCQKLGHNINQCWFRNNAQRSPSSVQCDHCQRKVHSNSQSWFKNEEQRSPKRMWPDWLKGDGGKRFSKMSTNNQLINDNIQYYNWGKRGHVSRNCYARSRSPSTSSSPQRDR 364 The following BLAST results are available for this feature:
BLAST of SMED30035897 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30035897 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30035897 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30035897 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30035897 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30035897 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30035897 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30035897 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30035897 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30035897 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30035897 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30035897 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30035897 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30035897 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 >SMED30035897 ID=SMED30035897|Name=SMED30035897|organism=Schmidtea mediterranea sexual|type=transcript|length=5944bpback to top protein sequence of SMED30035897-orf-1 >SMED30035897-orf-1 ID=SMED30035897-orf-1|Name=SMED30035897-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=104bp MKIELNLKSAQTKSESFAIVTETRERSKSPVRNNRVQQASNPSPKFRPKFback to top Annotated Terms
The following terms have been associated with this transcript:
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