SMED30017214
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., 2020SMED30017214 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 7
Homology
BLAST of SMED30017214 vs. Planmine SMEST
Match: SMESG000068350.1 (SMESG000068350.1) HSP 1 Score: 600.127 bits (1546), Expect = 0.000e+0 Identity = 328/328 (100.00%), Postives = 328/328 (100.00%), Query Frame = -1 Query: 2289 MFYEIEYKSLNRNDVFLFNENEIWTRWLKYSFNKRKRWEILKCIHYHMNIFEKKVILSVKNVNNSNGVFFGIFNQSNPISLNEHRNFDLMKSDFCRNNTKGFLNIQSLENEIHSKIFIKKPNNIVRRPKLSTRKNHRQIFVNNFKGKXXXXXXXXXXXXXXXXXYIHFSVTVDTMGSCKPRKSKFQKNKLKALNKKSIEYEIKESLSEYLFDKENKIKYGSLKISTEQPQTVTNVKGLITELPSNQLLSEAQSKVEIETQSTNVERNRPYTSKELQILIGEALGQAFIQLFEERPRDPISHLAKILYSLSKEPKYSRNLLDSHLDSVT 3272 MFYEIEYKSLNRNDVFLFNENEIWTRWLKYSFNKRKRWEILKCIHYHMNIFEKKVILSVKNVNNSNGVFFGIFNQSNPISLNEHRNFDLMKSDFCRNNTKGFLNIQSLENEIHSKIFIKKPNNIVRRPKLSTRKNHRQIFVNNFKGKNDFYYNEDYNNDSDSDSYIHFSVTVDTMGSCKPRKSKFQKNKLKALNKKSIEYEIKESLSEYLFDKENKIKYGSLKISTEQPQTVTNVKGLITELPSNQLLSEAQSKVEIETQSTNVERNRPYTSKELQILIGEALGQAFIQLFEERPRDPISHLAKILYSLSKEPKYSRNLLDSHLDSVT Sbjct: 1 MFYEIEYKSLNRNDVFLFNENEIWTRWLKYSFNKRKRWEILKCIHYHMNIFEKKVILSVKNVNNSNGVFFGIFNQSNPISLNEHRNFDLMKSDFCRNNTKGFLNIQSLENEIHSKIFIKKPNNIVRRPKLSTRKNHRQIFVNNFKGKNDFYYNEDYNNDSDSDSYIHFSVTVDTMGSCKPRKSKFQKNKLKALNKKSIEYEIKESLSEYLFDKENKIKYGSLKISTEQPQTVTNVKGLITELPSNQLLSEAQSKVEIETQSTNVERNRPYTSKELQILIGEALGQAFIQLFEERPRDPISHLAKILYSLSKEPKYSRNLLDSHLDSVT 328
BLAST of SMED30017214 vs. Planmine SMEST
Match: SMESG000004514.1 (SMESG000004514.1) HSP 1 Score: 101.293 bits (251), Expect = 1.230e-24 Identity = 62/107 (57.94%), Postives = 79/107 (73.83%), Query Frame = 3 Query: 1374 SYNSAQPRWPNVDYRYSISTPGDVA*PTQPGLIGDMNLPSIAIKREPGRNPAKEARQKIEFXXXXXXXXXXXXXXXXXXXXMKLENINRDIAT*RIPCSDGYAPSYD 1694 S SAQ R DY YS+STPGD P +PGLI D+++P IAIKREPGRNPA+E RQK+EF LL L E++R L HRR++ +++L+ INRDIA RI C+ YAP Y+ Sbjct: 34 STASAQCRHILWDYEYSVSTPGDSTLPARPGLIEDLDIPGIAIKREPGRNPARETRQKVEFYLLLLVEEERRLQHRRRMPQVELDKINRDIAAGRILCTGVYAPDYN 140
BLAST of SMED30017214 vs. Planmine SMEST
Match: SMESG000027782.1 (SMESG000027782.1) HSP 1 Score: 90.1225 bits (222), Expect = 4.871e-20 Identity = 59/135 (43.70%), Postives = 84/135 (62.22%), Query Frame = 3 Query: 1374 SYNSAQPRWPNVDYRYSISTPGDVA*PTQPGLIGD-MNLPSIAIKREPGRNPAKEARQKIEFXXXXXXXXXXXXXXXXXXXXMKLENINRDIAT*RIPCSDGYAPSYDTSFELDDPALKTLMVPIPNGLIHPSKL 1775 S ++A+ R D Y +ST GD + P + + + LPSIAIKREPG NPA+EARQ+ E+ ++++E +R + LAR +L +NRDIA+ IP +DG+ P Y SFELDDP L + + P L+ P KL Sbjct: 48 SASAARYRQVLWDNGYLLSTYGDSSWPRRSKYQAEEIELPSIAIKREPGHNPAREARQRAEYAAMKMEELERKYHRKAVLARQRLAQVNRDIASGAIPSTDGFPPEYGVSFELDDPRL--MQMTAPTKLVLPEKL 180
BLAST of SMED30017214 vs. Planmine SMEST
Match: SMESG000004883.1 (SMESG000004883.1) HSP 1 Score: 89.3521 bits (220), Expect = 4.024e-19 Identity = 56/128 (43.75%), Postives = 78/128 (60.94%), Query Frame = 3 Query: 1410 DYRYSISTPGDVA*PTQPGLIGD-MNLPSIAIKREPGRNPAKEARQKIEFXXXXXXXXXXXXXXXXXXXXMKLENINRDIAT*RIPCSDGYAPSYDTSFELDDPALKTLMVPIPNGLIHPSKLKRLEL 1790 D Y +ST GD + P + + + LPS+AIKREPG NPA+EARQ+ E+ ++ +E +R + LAR +L +NRDIA+ IP +DG+ P Y SFELDDP L + P ++ P KL R L Sbjct: 113 DNGYLLSTYGDSSWPRRSEYQAEEVELPSVAIKREPGHNPAREARQRAEYAAMKKEELERKYQRKAVLARQRLAQVNRDIASGAIPSTDGFPPEYGVSFELDDPRLTQMTAPTK--MVIPEKLVRSTL 238
BLAST of SMED30017214 vs. Planmine SMEST
Match: SMESG000056869.1 (SMESG000056869.1) HSP 1 Score: 86.6557 bits (213), Expect = 6.744e-19 Identity = 52/107 (48.60%), Postives = 71/107 (66.36%), Query Frame = 3 Query: 1476 DMNLPSIAIKREPGRNPAKEARQKIEFXXXXXXXXXXXXXXXXXXXXMKLENINRDIAT*RIPCSDGYAPSYDTSFELDDPALKTLMVP----IPNGLIHPSKLKRL 1784 ++ LPSIAIKREPGRNPA+E RQ+ E+ +++++E +R + LAR +L INRDIA+ IP +D + P+Y+ SFELDDP L + P IP LI P RL Sbjct: 62 EVELPSIAIKREPGRNPAREVRQQAEYTVMKMEEMERKYHRKAVLARQRLAQINRDIASGVIPSTDSFPPTYEVSFELDDPRLLQMTAPTKLVIPEELIQPVLRNRL 168 The following BLAST results are available for this feature:
BLAST of SMED30017214 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30017214 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30017214 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30017214 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30017214 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30017214 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30017214 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30017214 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30017214 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30017214 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30017214 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30017214 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30017214 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30017214 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 >SMED30017214 ID=SMED30017214|Name=SMED30017214|organism=Schmidtea mediterranea sexual|type=transcript|length=3410bpback to top protein sequence of SMED30017214-orf-1 >SMED30017214-orf-1 ID=SMED30017214-orf-1|Name=SMED30017214-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=332bp MFYEIEYKSLNRNDVFLFNENEIWTRWLKYSFNKRKRWEILKCIHYHMNIback to top Annotated Terms
The following terms have been associated with this transcript:
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