SMED30010951
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., 2020SMED30010951 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 10
Alignments
SMED30010951 aligns in the following genomic locations:
Homology
BLAST of SMED30010951 vs. TrEMBL
Match: I1ZI82 (Uncharacterized protein (Fragment) OS=Schmidtea mediterranea OX=79327 PE=2 SV=1) HSP 1 Score: 62.003 bits (149), Expect = 2.280e-8 Identity = 41/121 (33.88%), Postives = 56/121 (46.28%), Query Frame = 2 Query: 71 IYFANVESRQ---TACYVLTQTSKK--CDGLWKQIDNWCVSAYKKLDTYCDTRYVNLDKDCKSKYKNLAVNCHKERLTEDCSSSYKNTNEYCANELEKIDVKCDPMYTNLDKQCDKSYKNL 418 I FA V + C + KK C G+ +ID C Y++LD CD Y ++ + C KY L+ C + +LTEDC Y N + C L I KC Y +D CD Y +L Sbjct: 1 ILFAAVLIQSMLVVHCASVKAVEKKGFCSGILHRIDTECDDKYRRLDRECDHSYESIHEVCDIKYTMLSGRC-RVKLTEDCIKRYGNLDHSCLESLRNIQEKCQEKYNRVDDHCDALYNHL 120
BLAST of SMED30010951 vs. TrEMBL
Match: A0A210QR38 (Collagen alpha-5(VI) chain OS=Mizuhopecten yessoensis OX=6573 GN=KP79_PYT25622 PE=4 SV=1) HSP 1 Score: 61.2326 bits (147), Expect = 1.133e-6 Identity = 30/116 (25.86%), Postives = 49/116 (42.24%), Query Frame = 2 Query: 110 YVLTQTSKKCDGLWKQIDNWCVSAYKKLDTYCDTRYVNLDKDCKSKYKNLAVNCHK--ERLTEDCSSSYKNTNEYCANELEKIDVKCDPMYTNLDKQCDKSYKNLIDQCNPIYKKY 451 ++ + + C ++ DN C Y K D C N+D C Y N+ +CH ++ C Y ++ C + +K D C +Y N+D C Y + C+ Y KY Sbjct: 831 HIYDKYNNSCHHIYDGYDNSCHHIYDKYDNSCHHINANIDNSCHHIYANIDNSCHHIYDKYNNSCHHIYDKSDNSCHHIYDKYDNSCHHIYANIDNSCHHIYDKYDNSCHHSYDKY 946
BLAST of SMED30010951 vs. Planmine SMEST
Match: SMESG000076142.1 (SMESG000076142.1) HSP 1 Score: 323.553 bits (828), Expect = 7.216e-113 Identity = 174/176 (98.86%), Postives = 174/176 (98.86%), Query Frame = 2 Query: 32 MNYSFFSGLILVLIYFANVESRQTACYVLTQTSKKCDGLWKQIDNWCVSAYKKLDTYCDTRYVNLDKDCKSKYKNLAVNCHKERLTEDCSSSYKNTNEYCANELEKIDVKCDPMYTNLDKQCDKSYKNLIDQCNPIYKKYRRFCQSXXXXXXXXXXXXXDARQALREALEGTKAKD 559 MNYSFFSGLILVL YFANVESRQTACYVLTQTSKKCDGLWKQIDNWCVSAYKKLDTYCDTRYVNLDKDCKSKYKNLAVNCHKERLTEDCSSSYKNTNEYCANELEKIDVKCDPMYTNLDKQCDKSYKNLIDQCNPIYKKYRRFCQSKQEQKEELEELKEDARQALREALEGTK KD Sbjct: 1 MNYSFFSGLILVLFYFANVESRQTACYVLTQTSKKCDGLWKQIDNWCVSAYKKLDTYCDTRYVNLDKDCKSKYKNLAVNCHKERLTEDCSSSYKNTNEYCANELEKIDVKCDPMYTNLDKQCDKSYKNLIDQCNPIYKKYRRFCQSKQEQKEELEELKEDARQALREALEGTKVKD 176
BLAST of SMED30010951 vs. Planmine SMEST
Match: SMESG000034829.1 (SMESG000034829.1) HSP 1 Score: 73.1738 bits (178), Expect = 2.208e-15 Identity = 40/137 (29.20%), Postives = 61/137 (44.53%), Query Frame = 2 Query: 56 LILVLIYFANVESRQTACYVLTQTSKKCDGLWKQIDNWCVSAYKKLDTYCDTRYVNLDKDCKSKYKNLAVNCHKERLTEDCSSSYKNTNEYCANELEKIDVKCDPMYTNLDKQCDKSYKNLIDQCNPIYKKYRRFCQ 466 +I V I + + C L + CDG WK +D +C ++ D C+ RY LD C + Y+ C+ T C + YC + +D+ CD Y LDK C++ K L +C I+ Y R C+ Sbjct: 6 VIFVWISISTISGNNEECQNLLKKVISCDGDWKALDKYCAIKFETHDKVCERRYFYLDTRCNTDYEKYDKVCNYRERTGKCIKMLDRIDRYCVAKYAILDMNCDSDYRKLDKHCNQGSKELQHRCLAIFSNYHRVCK 142
BLAST of SMED30010951 vs. Planmine SMEST
Match: SMESG000024473.1 (SMESG000024473.1) HSP 1 Score: 64.3142 bits (155), Expect = 1.184e-12 Identity = 41/123 (33.33%), Postives = 58/123 (47.15%), Query Frame = 2 Query: 65 VLIYFANVESRQ---TACYVLTQTSKK--CDGLWKQIDNWCVSAYKKLDTYCDTRYVNLDKDCKSKYKNLAVNCHKERLTEDCSSSYKNTNEYCANELEKIDVKCDPMYTNLDKQCDKSYKNL 418 ++I FA V + C + KK C G+ +ID C Y++LD CD Y ++ + C KY L+ C + +LTEDC Y N + C L I KC Y +D CD Y +L Sbjct: 4 IMILFAAVLIQSMLVVHCASVKAVEKKGFCSGILHRIDTECDDKYRRLDRECDHSYESIHEVCDIKYTMLSGRC-RVKLTEDCIKRYGNLDHSCLESLRNIQEKCQEKYNRVDDHCDALYNHL 125
BLAST of SMED30010951 vs. Planmine SMEST
Match: SMESG000024478.1 (SMESG000024478.1) HSP 1 Score: 63.1586 bits (152), Expect = 3.004e-12 Identity = 41/122 (33.61%), Postives = 57/122 (46.72%), Query Frame = 2 Query: 68 LIYFANVESRQ---TACYVLTQTSKK--CDGLWKQIDNWCVSAYKKLDTYCDTRYVNLDKDCKSKYKNLAVNCHKERLTEDCSSSYKNTNEYCANELEKIDVKCDPMYTNLDKQCDKSYKNL 418 +I FA V + C + KK C G+ +ID C Y++LD CD Y ++ + C KY L+ C + +LTEDC Y N + C L I KC Y +D CD Y +L Sbjct: 1 MILFAAVLIQSMLVVHCASVKAVEKKGFCSGILHRIDTECDDKYRRLDRECDHSYESIHEVCDIKYTMLSGRC-RVKLTEDCIKRYGNLDHSCLESLRNIQEKCQEKYNRVDDHCDALYNHL 121
BLAST of SMED30010951 vs. Planmine SMEST
Match: SMESG000024473.1 (SMESG000024473.1) HSP 1 Score: 63.1586 bits (152), Expect = 3.004e-12 Identity = 41/122 (33.61%), Postives = 57/122 (46.72%), Query Frame = 2 Query: 68 LIYFANVESRQ---TACYVLTQTSKK--CDGLWKQIDNWCVSAYKKLDTYCDTRYVNLDKDCKSKYKNLAVNCHKERLTEDCSSSYKNTNEYCANELEKIDVKCDPMYTNLDKQCDKSYKNL 418 +I FA V + C + KK C G+ +ID C Y++LD CD Y ++ + C KY L+ C + +LTEDC Y N + C L I KC Y +D CD Y +L Sbjct: 1 MILFAAVLIQSMLVVHCASVKAVEKKGFCSGILHRIDTECDDKYRRLDRECDHSYESIHEVCDIKYTMLSGRC-RVKLTEDCIKRYGNLDHSCLESLRNIQEKCQEKYNRVDDHCDALYNHL 121 The following BLAST results are available for this feature:
BLAST of SMED30010951 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30010951 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30010951 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30010951 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30010951 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30010951 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30010951 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30010951 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 2
BLAST of SMED30010951 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30010951 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30010951 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30010951 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30010951 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30010951 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 >SMED30010951 ID=SMED30010951|Name=SMED30010951|organism=Schmidtea mediterranea sexual|type=transcript|length=880bpback to top protein sequence of SMED30010951-orf-1 >SMED30010951-orf-1 ID=SMED30010951-orf-1|Name=SMED30010951-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=177bp MNYSFFSGLILVLIYFANVESRQTACYVLTQTSKKCDGLWKQIDNWCVSAback to top Aliases
The feature 'SMED30010951' has the following synonyms
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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