SMED30025536
Overview
Neoblast Clusters
Zeng et. al., 2018▻ Overview▻ Neoblast 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
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., 2020SMED30025536 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 3
Homology
BLAST of SMED30025536 vs. TrEMBL
Match: V4BIY8 (Uncharacterized protein OS=Lottia gigantea OX=225164 GN=LOTGIDRAFT_165460 PE=4 SV=1) HSP 1 Score: 85.1149 bits (209), Expect = 6.930e-16 Identity = 41/96 (42.71%), Postives = 61/96 (63.54%), Query Frame = -1 Query: 1023 KYRGEMHVPGYNFCGPGTRTDLRLDDNKKPVQTSLPVNAIDELCVAHDIYYSSKSRLVRYQSDLRLIKALETMDTNNLSKQDRVVRRLIIYVFRLK 1310 KY GE H+PG+N+ GPGTR DLRLD+N KP PVN +D + HDI Y +K R+++D ++I LE + N + ++R+ R LI+ + + K Sbjct: 30 KYPGEKHLPGHNYTGPGTRLDLRLDENDKPKPGEEPVNRVDAAALKHDILYRNKDIQFRHEADKQMIIELENIP--NPTFKERMERALIVKLLKAK 123
BLAST of SMED30025536 vs. TrEMBL
Match: V3ZXK7 (Uncharacterized protein OS=Lottia gigantea OX=225164 GN=LOTGIDRAFT_155209 PE=4 SV=1) HSP 1 Score: 83.9593 bits (206), Expect = 1.724e-15 Identity = 42/96 (43.75%), Postives = 57/96 (59.38%), Query Frame = -1 Query: 1023 KYRGEMHVPGYNFCGPGTRTDLRLDDNKKPVQTSLPVNAIDELCVAHDIYYSSKSRLVRYQSDLRLIKALETMDTNNLSKQDRVVRRLIIYVFRLK 1310 KY GE H+PG+N+ GPGTR DLRLD N KP Q PVN +D + HDI Y +K + R+++D ++I LE + R+ R LII + K Sbjct: 31 KYPGEKHLPGHNYTGPGTRLDLRLDQNDKPKQGEEPVNRVDAAALKHDILYRNKDIISRHEADKQMIIELENI--------PRIQRALIIKLLTAK 118
BLAST of SMED30025536 vs. TrEMBL
Match: V4AAM0 (Uncharacterized protein OS=Lottia gigantea OX=225164 GN=LOTGIDRAFT_172863 PE=4 SV=1) HSP 1 Score: 84.7297 bits (208), Expect = 3.555e-15 Identity = 41/96 (42.71%), Postives = 60/96 (62.50%), Query Frame = -1 Query: 1023 KYRGEMHVPGYNFCGPGTRTDLRLDDNKKPVQTSLPVNAIDELCVAHDIYYSSKSRLVRYQSDLRLIKALETMDTNNLSKQDRVVRRLIIYVFRLK 1310 KY GE H+PG+N+ GPGTR DLRLD+N P PVN +D + HDI Y +K R+Q+D ++I LE + N + ++++ R LII + + K Sbjct: 32 KYPGEKHLPGHNYTGPGTRLDLRLDENDNPKPGEEPVNRVDAAALKHDILYRNKDITFRHQADKQMIDELENIP--NPTFKEKLQRALIIKLLKAK 125
BLAST of SMED30025536 vs. TrEMBL
Match: V3ZPR9 (Uncharacterized protein OS=Lottia gigantea OX=225164 GN=LOTGIDRAFT_155882 PE=4 SV=1) HSP 1 Score: 84.3445 bits (207), Expect = 6.227e-15 Identity = 41/96 (42.71%), Postives = 60/96 (62.50%), Query Frame = -1 Query: 1023 KYRGEMHVPGYNFCGPGTRTDLRLDDNKKPVQTSLPVNAIDELCVAHDIYYSSKSRLVRYQSDLRLIKALETMDTNNLSKQDRVVRRLIIYVFRLK 1310 KY GE H+PG+N+ GPGTR DLRLD N KP PVN +D + HDI Y +K R+++D ++I LE + N + ++++ R LII + + K Sbjct: 109 KYSGEKHLPGHNYTGPGTRLDLRLDQNDKPKPGEEPVNRVDAAALKHDILYRNKDLKFRHEADKQMIIELENIP--NPTFKEKMQRALIIKLLKTK 202
BLAST of SMED30025536 vs. TrEMBL
Match: V4A7J7 (Uncharacterized protein OS=Lottia gigantea OX=225164 GN=LOTGIDRAFT_162196 PE=4 SV=1) HSP 1 Score: 86.6557 bits (213), Expect = 1.838e-14 Identity = 43/100 (43.00%), Postives = 62/100 (62.00%), Query Frame = -1 Query: 1011 KYRGEMHVPGYNFCGPGTRTDLRLDDNKKPVQTSLPVNAIDELCVAHDIYYSSKSRLVRYQSDLRLIKALETMDTNNLSKQDRVVRRLIIYVFRLKSNFE 1310 KY GE H+PG+N+ GPGTR DLRLD+N KP PVN +D + HDI Y +K R+++D ++I LE + N + ++R+ R LII + + K E Sbjct: 30 KYPGEKHLPGHNYTGPGTRLDLRLDENDKPKPGEEPVNRVDAAALKHDILYRNKDINFRHEADKQMIIELENIP--NPTFKERMERALIIKLLKAKMKLE 127
BLAST of SMED30025536 vs. Ensembl Nematostella
Match: EDO44700 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7RUZ8]) HSP 1 Score: 50.8322 bits (120), Expect = 4.888e-7 Identity = 33/91 (36.26%), Postives = 52/91 (57.14%), Query Frame = -1 Query: 1047 GEMHV--P---GYNFCGPGTRTDLRLDDNKKPVQTSLPVNAIDELCVAHDIYYS-SKSRLVRYQSDLRLIKALETMDTNNLSKQDRVVRRL 1301 GE+H+ P YN+CGPGTR RL+ + + S P+N +D LC HDI YS SK ++ +D L++A+ + N+ + +RR+ Sbjct: 19 GEIHLRTPTGLSYNYCGPGTRLRQRLNSSNPGI--SNPINILDALCQKHDIAYSKSKDLDDKHVADDNLLEAISNIP-KNMQHKKTPLRRV 106
BLAST of SMED30025536 vs. Planmine SMEST
Match: SMESG000012349.1 (SMESG000012349.1) HSP 1 Score: 174.096 bits (440), Expect = 3.629e-52 Identity = 77/99 (77.78%), Postives = 92/99 (92.93%), Query Frame = -1 Query: 999 MHVPGYNFCGPGTRTDLRLDDNKKPVQTSLPVNAIDELCVAHDIYYSSKSRLVRYQSDLRLIKALETMDTNNLSKQDRVVRRLIIYVFRLKSNFEVMAG 1295 MHVPGYNFCGPGTRTDLRLD NKKPV TSLP+N+IDELCVAHDI Y +++RLVRY+SDL+LIKAL+ M T N+SKQD++VR+LIIYVF+LK+NFEV+AG Sbjct: 1 MHVPGYNFCGPGTRTDLRLDKNKKPVPTSLPINSIDELCVAHDIEYGNQNRLVRYKSDLKLIKALQDMATENMSKQDKLVRKLIIYVFKLKTNFEVLAG 99
BLAST of SMED30025536 vs. Planmine SMEST
Match: SMESG000000949.1 (SMESG000000949.1) HSP 1 Score: 120.939 bits (302), Expect = 4.792e-32 Identity = 58/104 (55.77%), Postives = 75/104 (72.12%), Query Frame = -1 Query: 999 KYRGEMHVPGYNFCGPGTRTDLRLDDNKKPVQTSLPVNAIDELCVAHDIYYSSKSRLVRYQSDLRLIKALETMDTNNLSKQDRVVRRLIIYVFRLKSNFEVMAG 1310 K +GEMH+PGYNF GPGTRTDLRLD++KKPV S P+N IDE C+ HDI Y+SK + VRY SD +LI ++ + + + ++ VV LIIYVF LK+ FE G Sbjct: 3 KLKGEMHIPGYNFWGPGTRTDLRLDEHKKPVSWSKPINKIDEQCLTHDIAYNSKDKRVRYDSDRQLI--MDILYLRHKTPEEEVVGNLIIYVFELKNIFEKKLG 104
BLAST of SMED30025536 vs. Planmine SMEST
Match: SMESG000003420.1 (SMESG000003420.1) HSP 1 Score: 64.6994 bits (156), Expect = 1.235e-12 Identity = 30/70 (42.86%), Postives = 43/70 (61.43%), Query Frame = -1 Query: 1101 KYRGEMHVPGYNFCGPGTRTDLRLDDNKKPVQTSLPVNAIDELCVAHDIYYSSKSRLVRYQSDLRLIKAL 1310 KY GE H+P +N+ GP TR D+RLD N P P+N +DE + HDI Y +++ R + D+ LI+ L Sbjct: 34 KYTGEHHLPKFNYLGPRTRLDIRLDSNDIPKPGEEPINRVDEDALRHDIAYRNENLRNRQKPDIDLIEDL 103
BLAST of SMED30025536 vs. Planmine SMEST
Match: SMESG000057616.1 (SMESG000057616.1) HSP 1 Score: 63.929 bits (154), Expect = 3.427e-11 Identity = 29/35 (82.86%), Postives = 31/35 (88.57%), Query Frame = -2 Query: 1550 STDGYAPPYNTSFNLDDSRLNARSTAIDVVVPRRV 1654 STDGYAPPYNTSFNLDD RLN S A+DVVVPRR+ Sbjct: 97 STDGYAPPYNTSFNLDDRRLNTNSKAVDVVVPRRI 131
BLAST of SMED30025536 vs. Planmine SMEST
Match: SMESG000079932.1 (SMESG000079932.1) HSP 1 Score: 62.7734 bits (151), Expect = 5.086e-11 Identity = 28/35 (80.00%), Postives = 33/35 (94.29%), Query Frame = -2 Query: 1550 STDGYAPPYNTSFNLDDSRLNARSTAIDVVVPRRV 1654 STDGYAPPYNTS+NLDD RLN RSTAI+VVVP+++ Sbjct: 87 STDGYAPPYNTSYNLDDERLNIRSTAINVVVPQKI 121 The following BLAST results are available for this feature:
BLAST of SMED30025536 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30025536 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30025536 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30025536 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30025536 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30025536 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30025536 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30025536 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30025536 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30025536 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30025536 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30025536 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 1
BLAST of SMED30025536 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30025536 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 >SMED30025536 ID=SMED30025536|Name=SMED30025536|organism=Schmidtea mediterranea sexual|type=transcript|length=1655bpback to top protein sequence of SMED30025536-orf-1 >SMED30025536-orf-1 ID=SMED30025536-orf-1|Name=SMED30025536-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=105bp MLSFVQRDSYYEEQFKNAENLKNYLVSPLTSYIDFRLNNFFIIRNNIETCback to top protein sequence of SMED30025536-orf-2 >SMED30025536-orf-2 ID=SMED30025536-orf-2|Name=SMED30025536-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=440bp MAPIKYRGEMHVPGYNFCGPGTRTDLRLDDNKKPVQTSLPVNAIDELCVAback to top Annotated Terms
The following terms have been associated with this transcript:
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