SMED30020960
Overview
Neoblast Clusters
Zeng et. al., 2018
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 AppEmbryonic 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., 2020SMED30020960 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 2
Homology
BLAST of SMED30020960 vs. Ensembl Human
Match: SETMAR (SET domain and mariner transposase fusion gene [Source:HGNC Symbol;Acc:HGNC:10762]) HSP 1 Score: 68.5514 bits (166), Expect = 5.686e-13 Identity = 52/154 (33.77%), Postives = 73/154 (47.40%), Query Frame = -3 Query: 234 LILCNNNDIFY*-IVTCNEK*IIYDNLRYSTS*--------HFLKPVLHQKIMILVV-----------------NG*NENYC*RILSTNI*DASEITTFEYAITNRKTTNFLGDNIHLLISA*TLQKLDEAGFEILPRAAYLPYPSQNDYHLFK 617 LIL N+N+ F IVTC+EK I+YDN R S HF KP+LH K +++ + +E Y I N ++ + A+ NRK L DN ++ TLQKL+E G+E+LP Y P +YH+FK Sbjct: 479 LILRNHNEPFLDRIVTCDEKWILYDNRRRSAQWLDQEEAPKHFPKPILHPKKVMVTIWWSAAGLIHYSFLNPGETITSEKYAQEIDEMN----QKLQRLQLALVNRKGPILLHDNARPHVAQPTLQKLNELGYEVLPHPPYSPDLLPTNYHVFK 628
BLAST of SMED30020960 vs. Ensembl Human
Match: SETMAR (SET domain and mariner transposase fusion gene [Source:HGNC Symbol;Acc:HGNC:10762]) HSP 1 Score: 67.0106 bits (162), Expect = 1.733e-12 Identity = 53/154 (34.42%), Postives = 74/154 (48.05%), Query Frame = -3 Query: 234 LILCNNNDIFY*-IVTCNEK*IIYDNLRYSTS*--------HFLKPVLH-QKIMILVVNG*----------------NENYC*RILSTNI*DASEITTFEYAITNRKTTNFLGDNIHLLISA*TLQKLDEAGFEILPRAAYLPYPSQNDYHLFK 617 LIL N+N+ F IVTC+EK I+YDN R S HF KP+LH +K+M+ + +E Y I N ++ + A+ NRK L DN ++ TLQKL+E G+E+LP Y P +YH+FK Sbjct: 340 LILRNHNEPFLDRIVTCDEKWILYDNRRRSAQWLDQEEAPKHFPKPILHPKKVMVTIWWSAAGLIHYSFLNPGETITSEKYAQEIDEMN----QKLQRLQLALVNRKGPILLHDNARPHVAQPTLQKLNELGYEVLPHPPYSPDLLPTNYHVFK 489
BLAST of SMED30020960 vs. UniProt/SwissProt
Match: sp|Q53H47|SETMR_HUMAN (Histone-lysine N-methyltransferase SETMAR OS=Homo sapiens OX=9606 GN=SETMAR PE=1 SV=2) HSP 1 Score: 68.5514 bits (166), Expect = 2.731e-12 Identity = 52/154 (33.77%), Postives = 73/154 (47.40%), Query Frame = -3 Query: 234 LILCNNNDIFY*-IVTCNEK*IIYDNLRYSTS*--------HFLKPVLHQKIMILVV-----------------NG*NENYC*RILSTNI*DASEITTFEYAITNRKTTNFLGDNIHLLISA*TLQKLDEAGFEILPRAAYLPYPSQNDYHLFK 617 LIL N+N+ F IVTC+EK I+YDN R S HF KP+LH K +++ + +E Y I N ++ + A+ NRK L DN ++ TLQKL+E G+E+LP Y P +YH+FK Sbjct: 479 LILRNHNEPFLDRIVTCDEKWILYDNRRRSAQWLDQEEAPKHFPKPILHPKKVMVTIWWSAAGLIHYSFLNPGETITSEKYAQEIDEMN----QKLQRLQLALVNRKGPILLHDNARPHVAQPTLQKLNELGYEVLPHPPYSPDLLPTNYHVFK 628
BLAST of SMED30020960 vs. TrEMBL
Match: A0A5S6QLP9 (Uncharacterized protein OS=Trichuris muris OX=70415 PE=4 SV=1) HSP 1 Score: 70.4774 bits (171), Expect = 2.674e-11 Identity = 57/154 (37.01%), Postives = 71/154 (46.10%), Query Frame = -3 Query: 234 LILCNNNDIF-Y*IVTCNEK*IIYDNLRYSTS*--------HFLKPVLHQKIMILVVNG*NENYC*RILSTNI*DASEITTFEY-----------------AITNRKTTNFLGDNIHLLISA*TLQKLDEAGFEILPRAAYLPYPSQNDYHLFK 617 L+L N ND F IVTC+EK I+YDN R S+ F KP +HQK ++L V I+ NI A E T + A+TNRK L DN +S T+QKL G+E LP Y P S DYH+FK Sbjct: 2 LLLRNKNDPFLARIVTCDEKWILYDNRRRSSQWLDKGAAPKRFPKPDVHQKKVMLTVWWSATG----IIHYNILKAGETVTAQTYCSELEKMHEKLQRARPALTNRKGPILLHDNARPHVSQMTVQKLHHLGYETLPHPPYSPDLSPTDYHIFK 151
BLAST of SMED30020960 vs. TrEMBL
Match: A0A5S6QCX4 (Uncharacterized protein OS=Trichuris muris OX=70415 PE=4 SV=1) HSP 1 Score: 71.2478 bits (173), Expect = 4.901e-11 Identity = 54/154 (35.06%), Postives = 71/154 (46.10%), Query Frame = -3 Query: 234 LILCNNNDIF-Y*IVTCNEK*IIYDNLRYSTS*--------HFLKPVLHQKIMILVVNG*N-----------------ENYC*RILSTNI*DASEITTFEYAITNRKTTNFLGDNIHLLISA*TLQKLDEAGFEILPRAAYLPYPSQNDYHLFK 617 L+L N ND F ++TC+EK I+YDN R S+ HF KP +HQK ++L V E YC + T+ ++ A+ NRK L DN IS T+QKL G+E LP Y P S DYH+FK Sbjct: 134 LLLRNKNDPFLARMITCDEKWILYDNRRRSSQWLDKGQPPKHFPKPEVHQKKVLLTVWWSATGIIHYSLLKPGQTVTAETYCTELEKTH----EKLQRSRPALANRKGPILLHDNARPHISQMTIQKLHHLGYETLPHPPYSPDLSPTDYHIFK 283
BLAST of SMED30020960 vs. TrEMBL
Match: A0A5S6QNF3 (Uncharacterized protein OS=Trichuris muris OX=70415 PE=4 SV=1) HSP 1 Score: 70.4774 bits (171), Expect = 9.345e-11 Identity = 57/154 (37.01%), Postives = 71/154 (46.10%), Query Frame = -3 Query: 234 LILCNNNDIF-Y*IVTCNEK*IIYDNLRYSTS*--------HFLKPVLHQKIMILVVNG*NENYC*RILSTNI*DASEITTFEY-----------------AITNRKTTNFLGDNIHLLISA*TLQKLDEAGFEILPRAAYLPYPSQNDYHLFK 617 L+L N ND F IVTC+EK I+YDN R S+ F KP +HQK ++L V I+ NI A E T + A+TNRK L DN +S T+QKL G+E LP Y P S DYH+FK Sbjct: 134 LLLRNKNDPFLARIVTCDEKWILYDNRRRSSQWLDKGAAPKRFPKPDVHQKKVMLTVWWSATG----IIHYNILKAGETVTAQTYCSELEKMHEKLQRTRPALTNRKGPILLHDNARPHVSQMTVQKLHHLGYETLPHPPYSPDLSPTDYHIFK 283
BLAST of SMED30020960 vs. TrEMBL
Match: A0A0L7RA29 (Histone-lysine N-methyltransferase SETMAR (Fragment) OS=Habropoda laboriosa OX=597456 GN=WH47_00853 PE=4 SV=1) HSP 1 Score: 70.0922 bits (170), Expect = 1.385e-10 Identity = 55/154 (35.71%), Postives = 73/154 (47.40%), Query Frame = -3 Query: 234 LILCNNNDIF-Y*IVTCNEK*IIYDNLRYSTS*--------HFLKPVLHQKIMILVV----------NG*N-------ENYC*RILSTNI*DASEITTFEYAITNRKTTNFLGDNIHLLISA*TLQKLDEAGFEILPRAAYLPYPSQNDYHLFK 617 +L N ND F + +VTC+EK I+YDN R S HF KP HQ+ +++ V N N E YC I + + ++ A+ NRK L DN ++ TLQKL+E G+E LP AY P S DYH FK Sbjct: 119 FLLRNKNDPFLHRLVTCDEKWIMYDNRRRSAQWLDHDEKPKHFPKPKQHQRKVMVTVWWSAVGIIHYNFLNPGETITAEKYCREIDNMH----EKLEQLNPALINRKGPILLHDNARPHVAQLTLQKLNELGYETLPHPAYSPDLSPTDYHFFK 268
BLAST of SMED30020960 vs. TrEMBL
Match: A0A0L7QJL5 (Histone-lysine N-methyltransferase SETMAR (Fragment) OS=Habropoda laboriosa OX=597456 GN=WH47_10341 PE=4 SV=1) HSP 1 Score: 69.707 bits (169), Expect = 1.513e-10 Identity = 55/154 (35.71%), Postives = 73/154 (47.40%), Query Frame = -3 Query: 234 LILCNNNDIF-Y*IVTCNEK*IIYDNLRYSTS*--------HFLKPVLHQKIMILVV----------NG*N-------ENYC*RILSTNI*DASEITTFEYAITNRKTTNFLGDNIHLLISA*TLQKLDEAGFEILPRAAYLPYPSQNDYHLFK 617 +L N ND F + +VTC+EK I+YDN R S HF KP HQ+ +++ V N N E YC I + + ++ A+ NRK L DN ++ TLQKL+E G+E LP AY P S DYH FK Sbjct: 119 FLLRNKNDPFLHRLVTCDEKWIMYDNRRRSAQWLDHDEKPKHFPKPKQHQRKVMVTVWWSAVGIIHYNFLNPGETIIAEKYCREIDNMH----EKLEQLNPALINRKGPILLHDNARPHVAQLTLQKLNELGYETLPHPAYSPDLSPTDYHFFK 268 The following BLAST results are available for this feature:
BLAST of SMED30020960 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 2
BLAST of SMED30020960 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30020960 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30020960 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30020960 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30020960 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30020960 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 1
BLAST of SMED30020960 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30020960 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30020960 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30020960 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30020960 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30020960 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30020960 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 0
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30020960 ID=SMED30020960|Name=SMED30020960|organism=Schmidtea mediterranea sexual|type=transcript|length=619bpback to top Annotated Terms
The following terms have been associated with this transcript:
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