SMED30032726
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., 2020SMED30032726 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 6
Alignments
SMED30032726 aligns in the following genomic locations:
Homology
BLAST of SMED30032726 vs. Planmine SMEST
Match: SMESG000059844.1 (SMESG000059844.1) HSP 1 Score: 152.14 bits (383), Expect = 3.486e-63 Identity = 77/115 (66.96%), Postives = 87/115 (75.65%), Query Frame = 2 Query: 1082 NSNTRWTDDDQTTLIIPNKFAGRHRQALWDWGYFLSTHRTPEWSYRNSN*CDEDVELPSPVIKRESESNLAREMRHEAEVAIQQFEHLKRKYRWKANFQGRRLAKINKYIASGRI 1426 N +T W ++DQ TL IP+KFAGR+RQALWD Y LSTH T EW YRN N DED+EL S IKRE N ARE+RHEAEVA+QQF HL+RKY WKA+ Q RRL KINK IA GRI Sbjct: 44 NPSTHWMENDQNTLTIPSKFAGRYRQALWDPRYSLSTHGTSEWPYRNKNRHDEDMELLSLAIKREPGRNPAREIRHEAEVALQQFVHLERKYHWKASLQLRRLVKINKDIAGGRI 158 HSP 2 Score: 110.153 bits (274), Expect = 3.486e-63 Identity = 54/72 (75.00%), Postives = 59/72 (81.94%), Query Frame = 3 Query: 1425 SDGYLPEYNVSFNPEDQALLELNAPVHLALPKCLLQLDILKALTNRSGEEHAYSRRPLKRGVPQGIYGHRIT 1640 SDGYL EYNV+FNPED A LELN PVHLALPK LLQ DIL+ALT+R+ EEHAYSRRPL R P YGH+IT Sbjct: 161 SDGYLLEYNVTFNPEDPAFLELNTPVHLALPKRLLQPDILEALTDRTYEEHAYSRRPLNREAPPRNYGHKIT 232
BLAST of SMED30032726 vs. Planmine SMEST
Match: SMESG000008335.1 (SMESG000008335.1) HSP 1 Score: 132.88 bits (333), Expect = 7.022e-47 Identity = 65/111 (58.56%), Postives = 82/111 (73.87%), Query Frame = 2 Query: 1094 RWTDDDQTTLIIPNKFAGRHRQALWDWGYFLSTHRTPEWSYRNSN*CDEDVELPSPVIKRESESNLAREMRHEAEVAIQQFEHLKRKYRWKANFQGRRLAKINKYIASGRI 1426 +W D + TTL +P++FAGR+RQALWD GY +STH TPEW R SN CDED ELPS VIKRE N ARE+R E E + ++E L+RKYR+ AN + RRLA+IN+ I +G I Sbjct: 92 QWRDMESTTLTVPSRFAGRYRQALWDQGYTISTHGTPEWPNRRSNNCDEDTELPSLVIKREPGRNPAREIRQETEGLLYRYEQLERKYRYLANQKRRRLARINEDITNGHI 202 HSP 2 Score: 74.7146 bits (182), Expect = 7.022e-47 Identity = 37/60 (61.67%), Postives = 42/60 (70.00%), Query Frame = 3 Query: 1425 SDGYLPEYNVSFNPEDQALLELNAPVHLALPKCLLQLDILKALTNRSGEEHAYSRRPLKR 1604 SDG+LP Y V+ +P D ALLEL+APVHL PK LLQ DI L +R EEH YSRR L R Sbjct: 205 SDGHLPSYRVAHDPSDPALLELDAPVHLVFPKLLLQPDIKDILEDRVTEEHVYSRRRLSR 264
BLAST of SMED30032726 vs. Planmine SMEST
Match: SMESG000010307.1 (SMESG000010307.1) HSP 1 Score: 156.377 bits (394), Expect = 5.748e-43 Identity = 79/121 (65.29%), Postives = 94/121 (77.69%), Query Frame = 2 Query: 1064 YLIVTENSNTRWTDDDQTTLIIPNKFAGRHRQALWDWGYFLSTHRTPEWSYRNSN*CDEDVELPSPVIKRESESNLAREMRHEAEVAIQQFEHLKRKYRWKANFQGRRLAKINKYIASGRI 1426 Y V NS T+W DD++TTLIIP+KFAGR+RQALWD Y LST+ T EW R+ DEDVELPS IKRE N AR++RHEAEVA+QQF+HL+RKYRWKA+ Q +RL +INK IASGRI Sbjct: 50 YPSVIGNSGTQWKDDERTTLIIPSKFAGRYRQALWDGVYSLSTYGTSEWPNRSRIRHDEDVELPSLAIKREPGRNTARKIRHEAEVALQQFDHLERKYRWKASLQRKRLMRINKDIASGRI 170 HSP 2 Score: 109.768 bits (273), Expect = 3.038e-26 Identity = 49/81 (60.49%), Postives = 67/81 (82.72%), Query Frame = 3 Query: 1395 KSTSTLPVVESDGYLPEYNVSFNPEDQALLELNAPVHLALPKCLLQLDILKALTNRSGEEHAYSRRPLKRGVPQGIYGHRI 1637 K ++ + SDGYLP+YN++F+PED ALLEL+APVH+ALPK ++Q DIL+AL +R+ EEHAYS+RPLKR +P+ +GHRI Sbjct: 163 KDIASGRISSSDGYLPDYNIAFDPEDPALLELSAPVHMALPKHIMQRDILEALDDRTSEEHAYSQRPLKREMPRRKFGHRI 243
BLAST of SMED30032726 vs. Planmine SMEST
Match: SMESG000010307.1 (SMESG000010307.1) HSP 1 Score: 154.066 bits (388), Expect = 3.874e-42 Identity = 77/115 (66.96%), Postives = 92/115 (80.00%), Query Frame = 2 Query: 1082 NSNTRWTDDDQTTLIIPNKFAGRHRQALWDWGYFLSTHRTPEWSYRNSN*CDEDVELPSPVIKRESESNLAREMRHEAEVAIQQFEHLKRKYRWKANFQGRRLAKINKYIASGRI 1426 NS T+W DD++TTLIIP+KFAGR+RQALWD Y LST+ T EW R+ DEDVELPS IKRE N AR++RHEAEVA+QQF+HL+RKYRWKA+ Q +RL +INK IASGRI Sbjct: 54 NSGTQWKDDERTTLIIPSKFAGRYRQALWDGVYSLSTYGTSEWPNRSRIRHDEDVELPSLAIKREPGRNTARKIRHEAEVALQQFDHLERKYRWKASLQRKRLMRINKDIASGRI 168 HSP 2 Score: 109.768 bits (273), Expect = 2.639e-26 Identity = 49/81 (60.49%), Postives = 67/81 (82.72%), Query Frame = 3 Query: 1395 KSTSTLPVVESDGYLPEYNVSFNPEDQALLELNAPVHLALPKCLLQLDILKALTNRSGEEHAYSRRPLKRGVPQGIYGHRI 1637 K ++ + SDGYLP+YN++F+PED ALLEL+APVH+ALPK ++Q DIL+AL +R+ EEHAYS+RPLKR +P+ +GHRI Sbjct: 161 KDIASGRISSSDGYLPDYNIAFDPEDPALLELSAPVHMALPKHIMQRDILEALDDRTSEEHAYSQRPLKREMPRRKFGHRI 241
BLAST of SMED30032726 vs. Planmine SMEST
Match: SMESG000060519.1 (SMESG000060519.1) HSP 1 Score: 105.531 bits (262), Expect = 1.135e-38 Identity = 59/114 (51.75%), Postives = 75/114 (65.79%), Query Frame = 2 Query: 1085 SNTRWTDDDQTTLIIPNKFAGRHRQALWDWGYFLSTHRTPEWSYRNSN*CDEDVELPSPVIKRESESNLAREMRHEAEVAIQQFEHLKRKYRWKANFQGRRLAKINKYIASGRI 1426 S+++W D ++TTL + N+FAGR+ QALWD GY +ST+ T EW RN D+D ELP +IKRE N ARE+R +AE A+ FE LKR YR N Q LA+I IAS RI Sbjct: 851 SSSKWVDVERTTLTVQNRFAGRYHQALWDPGYSISTYGTLEWPCRNPESRDKDTELPCILIKREPGRNPAREIRQKAEGALHHFEKLKRWYRPLTNQQREHLARIIMDIASWRI 964 HSP 2 Score: 74.3294 bits (181), Expect = 1.135e-38 Identity = 35/62 (56.45%), Postives = 42/62 (67.74%), Query Frame = 3 Query: 1428 DGYLPEYNVSFNPEDQALLELNAPVHLALPKCLLQLDILKALTNRSGEEHAYSRRPLKRGVP 1613 DG+LP Y V++NP+D LLE + PVHL +PK LLQ DI L +R EEHAYSRR L P Sbjct: 968 DGHLPSYGVAYNPDDPVLLESDTPVHLVVPKSLLQPDIRDILEDRVTEEHAYSRRRLSGKRP 1029 The following BLAST results are available for this feature:
BLAST of SMED30032726 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30032726 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30032726 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30032726 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30032726 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30032726 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30032726 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30032726 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30032726 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30032726 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30032726 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30032726 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30032726 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30032726 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 >SMED30032726 ID=SMED30032726|Name=SMED30032726|organism=Schmidtea mediterranea sexual|type=transcript|length=1655bpback 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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