Hmctn
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., 2020SMED30004914 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 7
Homology
BLAST of Hmctn vs. TrEMBL
Match: S5WES3 (Hmctn (Fragment) OS=Schmidtea mediterranea OX=79327 PE=2 SV=1) HSP 1 Score: 131.339 bits (329), Expect = 6.061e-36 Identity = 63/65 (96.92%), Postives = 64/65 (98.46%), Query Frame = 1 Query: 1 YNTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIWCEPSIKMGNDVIEQSQGRETMIQAIIN 195 YNTVTIFN+SRIHNGSYTCIVDNKVEGKQSKSFKLEIW EPSIKMGNDVIEQSQGRETMIQAIIN Sbjct: 61 YNTVTIFNISRIHNGSYTCIVDNKVEGKQSKSFKLEIWYEPSIKMGNDVIEQSQGRETMIQAIIN 125
BLAST of Hmctn vs. TrEMBL
Match: H2KUX2 (Opioid-binding protein/cell adhesion molecule homolog OS=Clonorchis sinensis OX=79923 GN=CLF_110631 PE=4 SV=1) HSP 1 Score: 52.7582 bits (125), Expect = 2.631e-6 Identity = 25/63 (39.68%), Postives = 38/63 (60.32%), Query Frame = 1 Query: 4 NTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIWCEPSIKMGNDVIEQSQGRETMIQAII 192 N + IFNV+R NG Y C+ N +E S+ +L++ P+I+M N I Q R TM++A+I Sbjct: 250 NHLQIFNVTRTMNGLYKCVAQNGLERMASRVIELDVHFPPTIRMANTKIGQLLYRTTMVRALI 312
BLAST of Hmctn vs. TrEMBL
Match: A0A419Q306 (Opioid-binding protein/cell adhesion molecule-like protein (Fragment) OS=Clonorchis sinensis OX=79923 GN=OPCML PE=4 SV=1) HSP 1 Score: 52.7582 bits (125), Expect = 2.896e-6 Identity = 25/63 (39.68%), Postives = 38/63 (60.32%), Query Frame = 1 Query: 4 NTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIWCEPSIKMGNDVIEQSQGRETMIQAII 192 N + IFNV+R NG Y C+ N +E S+ +L++ P+I+M N I Q R TM++A+I Sbjct: 223 NHLQIFNVTRTMNGLYKCVAQNGLERMASRVIELDVHFPPTIRMANTKIGQLLYRTTMVRALI 285
BLAST of Hmctn vs. TrEMBL
Match: A0A1S8X8Q7 (Immunoglobulin I-set domain protein (Fragment) OS=Opisthorchis viverrini OX=6198 GN=X801_00983 PE=4 SV=1) HSP 1 Score: 51.9878 bits (123), Expect = 3.405e-6 Identity = 25/63 (39.68%), Postives = 38/63 (60.32%), Query Frame = 1 Query: 4 NTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIWCEPSIKMGNDVIEQSQGRETMIQAII 192 N + IFNV+R NG Y C+ N +E S+ +L++ P+I+M N I Q R TM++A+I Sbjct: 64 NHLQIFNVTRTMNGLYKCVAQNGLERMASRVIELDVHFPPTIRMANTKIGQLLYRTTMVRALI 126
BLAST of Hmctn vs. TrEMBL
Match: A0A4S2LSS5 (Uncharacterized protein OS=Opisthorchis felineus OX=147828 GN=CRM22_005101 PE=4 SV=1) HSP 1 Score: 52.373 bits (124), Expect = 3.635e-6 Identity = 25/63 (39.68%), Postives = 38/63 (60.32%), Query Frame = 1 Query: 4 NTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIWCEPSIKMGNDVIEQSQGRETMIQAII 192 N + IFNV+R NG Y C+ N +E S+ +L++ P+I+M N I Q R TM++A+I Sbjct: 250 NHLQIFNVTRTMNGLYKCMAQNGLERMASRVIELDVHFPPTIRMANTKIGQLLYRTTMVRALI 312
BLAST of Hmctn vs. Planmine SMEST
Match: SMESG000006452.1 (SMESG000006452.1) HSP 1 Score: 132.88 bits (333), Expect = 1.366e-38 Identity = 64/65 (98.46%), Postives = 64/65 (98.46%), Query Frame = 1 Query: 1 YNTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIWCEPSIKMGNDVIEQSQGRETMIQAIIN 195 YNTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIW EPSIKMGNDVIEQSQGRETMIQAIIN Sbjct: 259 YNTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIWYEPSIKMGNDVIEQSQGRETMIQAIIN 323
BLAST of Hmctn vs. Planmine SMEST
Match: SMESG000006452.1 (SMESG000006452.1) HSP 1 Score: 132.494 bits (332), Expect = 1.604e-38 Identity = 64/65 (98.46%), Postives = 64/65 (98.46%), Query Frame = 1 Query: 1 YNTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIWCEPSIKMGNDVIEQSQGRETMIQAIIN 195 YNTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIW EPSIKMGNDVIEQSQGRETMIQAIIN Sbjct: 253 YNTVTIFNVSRIHNGSYTCIVDNKVEGKQSKSFKLEIWYEPSIKMGNDVIEQSQGRETMIQAIIN 317
BLAST of Hmctn vs. Planmine SMEST
Match: SMESG000067482.1 (SMESG000067482.1) HSP 1 Score: 41.2022 bits (95), Expect = 9.330e-6 Identity = 20/62 (32.26%), Postives = 34/62 (54.84%), Query Frame = 1 Query: 16 IFNVSRIH---NGSYTCIVDNKVEGKQSKSFKLEIWCEPSIKMGNDVIEQSQGRETMIQAII 192 + +SR+H G Y C+ +NKVE + F+L + +P I M N I Q +T+I+ ++ Sbjct: 194 MLQISRVHRDMTGFYACVANNKVEPEARSKFQLIVKFKPEIVMTNSEIHQRLKGDTVIECVV 255 The following BLAST results are available for this feature:
BLAST of Hmctn vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of Hmctn vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of Hmctn vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of Hmctn vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of Hmctn vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of Hmctn vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of Hmctn vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of Hmctn vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of Hmctn vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of Hmctn vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of Hmctn vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of Hmctn vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of Hmctn vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of Hmctn vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 3
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30004914 ID=SMED30004914|Name=Hmctn|organism=Schmidtea mediterranea sexual|type=transcript|length=196bpback 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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