SMED30023862
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., 2020SMED30023862 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 31Note: Hover over icons to view figure legend
Homology
BLAST of SMED30023862 vs. Planmine SMEST
Match: SMESG000009320.1 (SMESG000009320.1) HSP 1 Score: 577.4 bits (1487), Expect = 0.000e+0 Identity = 279/282 (98.94%), Postives = 280/282 (99.29%), Query Frame = 3 Query: 45 MDDEDDKINICSELWNDLEPYSPCIIKFSSPITTGFRFRYQSEIEKKSYSLLKAEKNSSPTLEITTTECYTDLVVELVTADGEPHFNMLYEVPKDKMIEPLVRNGVYNVVLKDPGSYEIKLDLGIRKMKNKEAMVRIKELYPKMKDSEAKSFFNKNKDAVRLKVSCYNNEIPACHICSDVIKSQISKENKMIKIKHFAPKVVADLGEELILVLEKKITTDDFKATLTLNAESYPLKPIEQDGQTFVFNLPRVNCLNSTNGKFTMECGENSDSKPITFIPIQT 890 MDDEDDKINICSELWNDLEPYSPCIIKFSSPITTGFRFRYQSEIEKKSYSLLKAEKNSSPTLEITTTECYTDLVVELVTADGEPHFNMLYEVPKDKMIEPLVRNGVYNVVLKDPG YEIKLDLGIRKMKNKEAMVRIKELYPKMKDSEAKSFFNKNKDAVRLKVSCYNNEIPACHICSDVIKSQISKENKMIKIKHFAPKVVADLGEELILVLEKKITTDDFKATLTLNAESYPLKPIEQDGQTFVFNLPRVNCLNSTNGKFTMECGENSDSKPI F+PIQT Sbjct: 1 MDDEDDKINICSELWNDLEPYSPCIIKFSSPITTGFRFRYQSEIEKKSYSLLKAEKNSSPTLEITTTECYTDLVVELVTADGEPHFNMLYEVPKDKMIEPLVRNGVYNVVLKDPGFYEIKLDLGIRKMKNKEAMVRIKELYPKMKDSEAKSFFNKNKDAVRLKVSCYNNEIPACHICSDVIKSQISKENKMIKIKHFAPKVVADLGEELILVLEKKITTDDFKATLTLNAESYPLKPIEQDGQTFVFNLPRVNCLNSTNGKFTMECGENSDSKPIKFLPIQT 282
BLAST of SMED30023862 vs. Planmine SMEST
Match: SMESG000009320.1 (SMESG000009320.1) HSP 1 Score: 577.4 bits (1487), Expect = 0.000e+0 Identity = 279/282 (98.94%), Postives = 280/282 (99.29%), Query Frame = 3 Query: 45 MDDEDDKINICSELWNDLEPYSPCIIKFSSPITTGFRFRYQSEIEKKSYSLLKAEKNSSPTLEITTTECYTDLVVELVTADGEPHFNMLYEVPKDKMIEPLVRNGVYNVVLKDPGSYEIKLDLGIRKMKNKEAMVRIKELYPKMKDSEAKSFFNKNKDAVRLKVSCYNNEIPACHICSDVIKSQISKENKMIKIKHFAPKVVADLGEELILVLEKKITTDDFKATLTLNAESYPLKPIEQDGQTFVFNLPRVNCLNSTNGKFTMECGENSDSKPITFIPIQT 890 MDDEDDKINICSELWNDLEPYSPCIIKFSSPITTGFRFRYQSEIEKKSYSLLKAEKNSSPTLEITTTECYTDLVVELVTADGEPHFNMLYEVPKDKMIEPLVRNGVYNVVLKDPG YEIKLDLGIRKMKNKEAMVRIKELYPKMKDSEAKSFFNKNKDAVRLKVSCYNNEIPACHICSDVIKSQISKENKMIKIKHFAPKVVADLGEELILVLEKKITTDDFKATLTLNAESYPLKPIEQDGQTFVFNLPRVNCLNSTNGKFTMECGENSDSKPI F+PIQT Sbjct: 1 MDDEDDKINICSELWNDLEPYSPCIIKFSSPITTGFRFRYQSEIEKKSYSLLKAEKNSSPTLEITTTECYTDLVVELVTADGEPHFNMLYEVPKDKMIEPLVRNGVYNVVLKDPGFYEIKLDLGIRKMKNKEAMVRIKELYPKMKDSEAKSFFNKNKDAVRLKVSCYNNEIPACHICSDVIKSQISKENKMIKIKHFAPKVVADLGEELILVLEKKITTDDFKATLTLNAESYPLKPIEQDGQTFVFNLPRVNCLNSTNGKFTMECGENSDSKPIKFLPIQT 282
BLAST of SMED30023862 vs. Planmine SMEST
Match: SMESG000009332.1 (SMESG000009332.1) HSP 1 Score: 407.912 bits (1047), Expect = 8.809e-134 Identity = 206/259 (79.54%), Postives = 222/259 (85.71%), Query Frame = 3 Query: 114 CIIKFSSPITTGFRFRYQSEIEKKSYSLLKAEKNSSPTLEITTTECYTDLVVELVTADGEPHFNMLYEVPKDKMIEPLVRNGVYNVVLKDPGSYEIKLDLGIRKMKNKEAMVRIKELYPKMKDSEAKSFFNKNKDAVRLKVSCYNNEIPACHICSDVIKSQISKENKMIKIKHFAPKVVADLGEELILVLEKKITTDDFKATLTLNAESYPLKPIEQDGQTFVFNLPRVNCLNSTNGKFTMECGENSDSKPITFIPIQT 890 C I+F TG RFRY+SEI KK YSLLK+ N S L+I TT+C T+LV+ELVT DG+ HF+ LYEV KD L+R G + LK G + IKLDLGIRKMKNKEAMV+IKELYPKMKDSEAKSFFNKNKDAVRLKVSCYNNEIPACHICSDVIKSQ S+ENKMIKIKHFAPKVVADLGEELILVLEKKITTDDFKATLTLNAESYPLK IEQDGQTFVFNLPRVNCLNSTNGKFTM+CGENSDSKPI F+PIQT Sbjct: 11 CTIEFGILPQTGNRFRYESEINKKCYSLLKSGNNKSLDLKINTTKCDTNLVIELVTDDGKKHFHNLYEVQKD----GLIRYGCFQKTLKHSGFHLIKLDLGIRKMKNKEAMVQIKELYPKMKDSEAKSFFNKNKDAVRLKVSCYNNEIPACHICSDVIKSQTSRENKMIKIKHFAPKVVADLGEELILVLEKKITTDDFKATLTLNAESYPLKSIEQDGQTFVFNLPRVNCLNSTNGKFTMKCGENSDSKPIKFLPIQT 265 HSP 2 Score: 298.901 bits (764), Expect = 3.548e-92 Identity = 167/171 (97.66%), Postives = 168/171 (98.25%), Query Frame = 1 Query: 1435 VTQESRKRKEVSVKEDSPLKRINNYDPQDNQSLSVNLMEYITDDRSRNDSDPLICSVTQSDFPFQDEKDIFSIXXXXXXXXXXXXXXXXXXXXFETLYTPEYQHNEGMDWSEHSVGNEIINLREIIMPKYLGSHADYQSNVSLDEIKEPFNDIEGSIDEMNLSKPIFCVRK 1947 + ESRKRKEVSVKEDSPLKRINNYDPQDNQSLSVNLMEYITDDRSRNDSDPLICSVTQSDFPFQDEKDIFSIDNTKMDNDNDLDNNIHNDLNFETLYTPEYQHNEGMDWSEHSVGNEIINLREIIMPKYLGSHADYQSNV LDEIKEPFNDIEGSIDEMNLSKPIFCVRK Sbjct: 263 IQTESRKRKEVSVKEDSPLKRINNYDPQDNQSLSVNLMEYITDDRSRNDSDPLICSVTQSDFPFQDEKDIFSIDNTKMDNDNDLDNNIHNDLNFETLYTPEYQHNEGMDWSEHSVGNEIINLREIIMPKYLGSHADYQSNVPLDEIKEPFNDIEGSIDEMNLSKPIFCVRK 433
BLAST of SMED30023862 vs. Planmine SMEST
Match: SMESG000030673.1 (SMESG000030673.1) HSP 1 Score: 46.9802 bits (110), Expect = 1.970e-6 Identity = 25/49 (51.02%), Postives = 35/49 (71.43%), Query Frame = 2 Query: 1961 RKDI-KEYQRITCIKEE*TKSER*DYIEKCQDFRIAPGKLEYKYNVTEK 2104 RK++ + YQRI+CI+EE +KS + DY E QDFRI + E +YNV +K Sbjct: 18 RKEVPRRYQRISCIEEEESKSRKQDYTENNQDFRITHSETEERYNVPQK 66
BLAST of SMED30023862 vs. Planmine SMEST
Match: SMESG000008586.1 (SMESG000008586.1) HSP 1 Score: 45.8246 bits (107), Expect = 6.349e-6 Identity = 26/59 (44.07%), Postives = 37/59 (62.71%), Query Frame = 2 Query: 1931 FFAFESSSPSRKDI-KEYQRITCIKEE*TKSER*DYIEKCQDFRIAPGKLEYKYNVTEK 2104 ++ F+ RK+ + Y+RI CI+EE +K + DY E QDFRI K+E +YNV EK Sbjct: 5 WYGFQDCFSLRKEAPRRYRRIPCIEEEDSKFRKQDYTENNQDFRITHSKIEERYNVPEK 63 The following BLAST results are available for this feature:
BLAST of SMED30023862 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30023862 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30023862 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30023862 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30023862 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30023862 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30023862 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30023862 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30023862 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30023862 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30023862 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30023862 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30023862 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30023862 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 >SMED30023862 ID=SMED30023862|Name=SMED30023862|organism=Schmidtea mediterranea sexual|type=transcript|length=2734bpback to top protein sequence of SMED30023862-orf-1 >SMED30023862-orf-1 ID=SMED30023862-orf-1|Name=SMED30023862-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=159bp MEYITDDRSRNDSDPLICSVTQSDFPFQDEKDIFSIDNTKMDNDNDLDNNback to top protein sequence of SMED30023862-orf-2 >SMED30023862-orf-2 ID=SMED30023862-orf-2|Name=SMED30023862-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=325bp MDDEDDKINICSELWNDLEPYSPCIIKFSSPITTGFRFRYQSEIEKKSYSback to top Annotated Terms
The following terms have been associated with this transcript:
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