X1.A.G7.1
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., 2020SMED30000843 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 11
Homology
BLAST of X1.A.G7.1 vs. TrEMBL
Match: V9XRT9 (X1.A.G7.1 (Fragment) OS=Schmidtea mediterranea OX=79327 PE=2 SV=1) HSP 1 Score: 365.925 bits (938), Expect = 3.630e-126 Identity = 201/206 (97.57%), Postives = 204/206 (99.03%), Query Frame = 2 Query: 104 MSKKDCGDIYDQLSSSPPEYSQQPTNLLMNSTGIHSDQVQDGSVRLVLLESKEIRSGSKFINSKSHRIFGYILIACGVFVLCIDPLLPILLEYPFSISIAGVFMIISGIFSIQAVKRNLKLYLIFAKXXXXXXXXXXXXXXXXXXXYGTAFYHRQNGTLIFTVFYGILTMSLLVLLIFNSALICKEICCRQQRMSQVQYVACEQPV 721 MS+KDCGDIYDQLSSSPPEYSQQPTNLL+NSTGIHSDQVQDG VRLVLLESKEIRSGSKFINSKSHRIFGYILIACG+FVLCIDPLLPILLEYPFSISIAGVFMIISGIFSIQAVKRNLKLYLIFAKILNILALINIGIGILVAILYGTAFYHRQNG LIFTVFYGILTMSLLVLLIFNSALICKEICCRQQRMSQVQYVACEQPV Sbjct: 1 MSQKDCGDIYDQLSSSPPEYSQQPTNLLINSTGIHSDQVQDGPVRLVLLESKEIRSGSKFINSKSHRIFGYILIACGIFVLCIDPLLPILLEYPFSISIAGVFMIISGIFSIQAVKRNLKLYLIFAKILNILALINIGIGILVAILYGTAFYHRQNGILIFTVFYGILTMSLLVLLIFNSALICKEICCRQQRMSQVQYVACEQPV 206
BLAST of X1.A.G7.1 vs. Planmine SMEST
Match: SMESG000070405.1 (SMESG000070405.1) HSP 1 Score: 383.259 bits (983), Expect = 2.029e-136 Identity = 210/210 (100.00%), Postives = 210/210 (100.00%), Query Frame = 2 Query: 98 MFMSKKDCGDIYDQLSSSPPEYSQQPTNLLMNSTGIHSDQVQDGSVRLVLLESKEIRSGSKFINSKSHRIFGYILIACGVFVLCIDPLLPILLEYPFSISIAGVFMIISGIFSIQAVKRNLKLYLIFAKXXXXXXXXXXXXXXXXXXXYGTAFYHRQNGTLIFTVFYGILTMSLLVLLIFNSALICKEICCRQQRMSQVQYVACEQPVNI 727 MFMSKKDCGDIYDQLSSSPPEYSQQPTNLLMNSTGIHSDQVQDGSVRLVLLESKEIRSGSKFINSKSHRIFGYILIACGVFVLCIDPLLPILLEYPFSISIAGVFMIISGIFSIQAVKRNLKLYLIFAKILNILALINIGIGILVAILYGTAFYHRQNGTLIFTVFYGILTMSLLVLLIFNSALICKEICCRQQRMSQVQYVACEQPVNI Sbjct: 1 MFMSKKDCGDIYDQLSSSPPEYSQQPTNLLMNSTGIHSDQVQDGSVRLVLLESKEIRSGSKFINSKSHRIFGYILIACGVFVLCIDPLLPILLEYPFSISIAGVFMIISGIFSIQAVKRNLKLYLIFAKILNILALINIGIGILVAILYGTAFYHRQNGTLIFTVFYGILTMSLLVLLIFNSALICKEICCRQQRMSQVQYVACEQPVNI 210
BLAST of X1.A.G7.1 vs. Planmine SMEST
Match: SMESG000046775.1 (SMESG000046775.1) HSP 1 Score: 134.806 bits (338), Expect = 1.300e-38 Identity = 90/201 (44.78%), Postives = 128/201 (63.68%), Query Frame = 2 Query: 137 QLSSSPPEYSQQPTNLLMNSTGIHSDQVQDGSVRLVLLESKEIRSGSKFINSKSHRIFGYILIACGVFVLCIDPLLPILLEYPFSISIAGVFMIISGIFSIQAVKRNLKLYLIFAKXXXXXXXXXXXXXXXXXXXY----------GTAFYHRQNGTLIFT-VFYGILTMSLLVLLIFNSALICKEICCRQQRMSQVQYVA 706 Q + SPPEYS++ LL N T IH QV G + ++L + S +KF NSK HRI+G ILI GV ++ +DPLLPIL YPF+I IAG+F IISG SIQ V+ N K+YLI A I NIL+LIN GIGI++AI+ Y + ++ T + +L+ +L +LLIF++ IC+E+CC++Q+ S++Q+ Sbjct: 20 QFTLSPPEYSEKSNYLLSNVTDIHPPQVAVGPICMILPQLYAPESQNKFWNSKLHRIYGSILIVFGVIIIILDPLLPILYRYPFTIVIAGIFTIISGCLSIQGVRSNKKVYLISAMIFNILSLINCGIGIIIAIIMVLTHNRFSGPCPRHYSQYCSNMVLTGAIHKVLSFALFLLLIFHTTTICREVCCKRQKASKIQFAT 220
BLAST of X1.A.G7.1 vs. Planmine SMEST
Match: SMESG000046786.1 (SMESG000046786.1) HSP 1 Score: 132.88 bits (333), Expect = 7.203e-38 Identity = 93/204 (45.59%), Postives = 126/204 (61.76%), Query Frame = 2 Query: 137 QLSSSPPEYSQQPTNLLMNSTGIHSDQVQDGSVRLVLLESKEIRSGSKFINSKSHRIFGYILIACGVFVLCIDPLLPILLEYPFSISIAGVFMIISGIFSIQAVKRNLKLYLIFAKXXXXXXXXXX---XXXXXXXXXYGTAFYHRQNGTL-------IFT-VFYGILTMSLLVLLIFNSALICKEICCRQQRMSQVQYVACEQ 715 Q + SPPEYS++ LL N T I S QV G + ++L +S S SKF SK HRI+G ILI GV ++ +DPLLPIL YPF+I IAG+F I+SG SIQ V+ N K+ LI A ILNIL+LIN I ++ +L T F N TL + T G+L+++L +LLIF++ IC+E+CC++Q+ VQY Q Sbjct: 20 QFTLSPPEYSEKSNYLLNNVTDIRSSQVPVGPICIILPQSDASESQSKFHFSKPHRIYGLILIVFGVIIIILDPLLPILYRYPFTIVIAGIFTIVSGSLSIQGVRSNKKVCLISAMILNILSLINCGIGIIVAIIMVLTHTHFTIPCNRTLSDFCSNIVKTGTILGVLSIALFLLLIFDTTTICREVCCKRQKAPNVQYATNVQ 223
BLAST of X1.A.G7.1 vs. Planmine SMEST
Match: SMESG000046788.1 (SMESG000046788.1) HSP 1 Score: 127.102 bits (318), Expect = 7.484e-36 Identity = 89/205 (43.41%), Postives = 129/205 (62.93%), Query Frame = 2 Query: 104 MSKKDCGDIYDQLSSSPPEYSQQPTNLLMNSTGIHSDQVQDGSVRLVLLESKEIRSGSKFINSKSHRIFGYILIACGVFVLCIDPLLPILLEYPFSISIAGVFMIISGIFSIQAVKRNLKLYLIFAKXXXXXXXXXXXXXXXXXXXYGTAFYHRQNGTLIFTVFYGILTMSLLVLLIFNSALICKEICCRQQRMSQVQYVACEQP 718 MS+K +I Q++ +PP YS+ +L+ N I QV G V LVL + S +KF + + HRIFG + CG+ VL DPL+PIL Y FS+ IAG+FMIISG+FS QAV+RN K +L+ + ILNIL++INIG+GI++AI+ + T + +F G+L L +L+IF+S +IC+E ++ QVQY+ QP Sbjct: 1 MSEKGYDEIPYQINENPPGYSEHSRSLINNPVHIPPAQVPVGPVHLVLPQPNAAESLNKFHHKRLHRIFGNTFMVCGIIVLLFDPLIPILYGYSFSVCIAGLFMIISGVFSKQAVQRNKKAFLMVSNILNILSMINIGVGIIIAIIIIL------HSTWLLAIFTGLLYGCLFLLIIFDSVIICRE-NFNKKSFPQVQYIPYIQP 198
BLAST of X1.A.G7.1 vs. Planmine SMEST
Match: SMESG000046789.1 (SMESG000046789.1) HSP 1 Score: 121.709 bits (304), Expect = 1.718e-33 Identity = 94/225 (41.78%), Postives = 136/225 (60.44%), Query Frame = 2 Query: 104 MSKKDCGDIYDQLSSSPPEYSQQPTNLLMNSTGIHSDQVQDGSVRLVLLESKEIRSGSKFINSKSHRIFGYILIACGVFVLCIDPLLPILLEYPFSISIAGVFMIISGIFSIQAVKRNLKLYLIFAKXXXXXXXXXXXXXXXXXXXYGTA-----------------FYHRQNGTLIFT--VFYGILTMSLLVLLIFNSALICKEICCRQQRMSQVQYVACEQPV 721 MS + +I +L+ PP YS+ N ST + Q G VR++ E +KF +K HRIFG ILIACG+ +L +DPL+P+L PFSI IAG+FMI SG+ S+ AVKRN+KL +IF+ ILNIL+ +NI IG ++ + F HRQ IFT +F+GI + L++LLIF ++I +E+CC+++++ +VQYVA EQP+ Sbjct: 1 MSSEISSNIPLKLNPDPPRYSEHQGN----STNVLPAQSSLGLVRILPTEPNSPPQQNKFGYTKLHRIFGQILIACGIIILLLDPLIPLLFGIPFSICIAGLFMIASGVMSLIAVKRNVKLLMIFSNILNILSSVNIAIGTAFHTIWAISYSPRKQCPKSDYVNPHCFEHRQQNLSIFTISIFFGIFNLFLVILLIFYISVINREMCCKKKKIPKVQYVAYEQPL 221 The following BLAST results are available for this feature:
BLAST of X1.A.G7.1 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of X1.A.G7.1 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of X1.A.G7.1 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of X1.A.G7.1 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of X1.A.G7.1 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of X1.A.G7.1 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of X1.A.G7.1 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of X1.A.G7.1 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 1
BLAST of X1.A.G7.1 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of X1.A.G7.1 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of X1.A.G7.1 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of X1.A.G7.1 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of X1.A.G7.1 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of X1.A.G7.1 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 Cross References
External references for this transcript
Sequences
The following sequences are available for this feature:
transcript sequence >SMED30000843 ID=SMED30000843|Name=X1.A.G7.1|organism=Schmidtea mediterranea sexual|type=transcript|length=787bpback to top protein sequence of SMED30000843-orf-1 >SMED30000843-orf-1 ID=SMED30000843-orf-1|Name=SMED30000843-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=211bp MFMSKKDCGDIYDQLSSSPPEYSQQPTNLLMNSTGIHSDQVQDGSVRLVLback 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
|