SMED30027684
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., 2020SMED30027684 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 1
Alignments
SMED30027684 aligns in the following genomic locations:
Homology
BLAST of SMED30027684 vs. TrEMBL
Match: H2KTG6 (Uncharacterized protein OS=Clonorchis sinensis OX=79923 GN=CLF_102994 PE=4 SV=1) HSP 1 Score: 83.9593 bits (206), Expect = 3.943e-14 Identity = 44/108 (40.74%), Postives = 69/108 (63.89%), Query Frame = 1 Query: 502 LGSDLSNEEKVVCVEAW----SKSIVHRAAKIFLGANLEPKVDFDMDME-TNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNYVIFSNIMTHLRLHFRRRKNF 810 LGS ++ +E+VV ++ S S + A++ FL A+L DFDM+ME + GV + TGIF+CH+CR R ++ VRFSI++ Y + SN+++HL+ HF+ R F Sbjct: 412 LGSGINYDEEVVDLDRLKQHSSASAIRLASRQFLNAHLVRGRDFDMEMEISTTPEGVKRVTGIFYCHLCREKRERTSAVRFSIARNRYPVLSNVLSHLKTHFQYRGQF 519
BLAST of SMED30027684 vs. TrEMBL
Match: A0A3R7ES02 (Uncharacterized protein OS=Clonorchis sinensis OX=79923 GN=CSKR_8860s PE=4 SV=1) HSP 1 Score: 83.5741 bits (205), Expect = 4.247e-14 Identity = 44/108 (40.74%), Postives = 69/108 (63.89%), Query Frame = 1 Query: 502 LGSDLSNEEKVVCVEAW----SKSIVHRAAKIFLGANLEPKVDFDMDME-TNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNYVIFSNIMTHLRLHFRRRKNF 810 LGS ++ +E+VV ++ S S + A++ FL A+L DFDM+ME + GV + TGIF+CH+CR R ++ VRFSI++ Y + SN+++HL+ HF+ R F Sbjct: 412 LGSGINYDEEVVDLDRLKQHSSASAIRLASRQFLNAHLVRGRDFDMEMEISTTPEGVKRVTGIFYCHLCREKRERTSAVRFSIARNRYPVLSNVLSHLKTHFQYRGQF 519
BLAST of SMED30027684 vs. TrEMBL
Match: A0A4S2MCE0 (Uncharacterized protein OS=Opisthorchis felineus OX=147828 GN=CRM22_002015 PE=4 SV=1) HSP 1 Score: 82.0333 bits (201), Expect = 1.472e-13 Identity = 43/108 (39.81%), Postives = 68/108 (62.96%), Query Frame = 1 Query: 502 LGSDLSNEEKVVCVEAW----SKSIVHRAAKIFLGANLEPKVDFDMDME-TNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNYVIFSNIMTHLRLHFRRRKNF 810 LG ++ +E+VV ++ S S + A++ FL A+L DFDM+ME + GV + TGIF+CH+CR R ++ VRFSI++ Y + SN+++HL+ HF+ R F Sbjct: 412 LGPGINYDEEVVDLDRLKQHSSASAIRLASRQFLNAHLVRGRDFDMEMEISTTPEGVKRVTGIFYCHLCREKRERTSAVRFSIARNRYPVLSNVLSHLKTHFQYRGQF 519
BLAST of SMED30027684 vs. TrEMBL
Match: A0A074ZZZ3 (Uncharacterized protein OS=Opisthorchis viverrini OX=6198 GN=T265_00944 PE=4 SV=1) HSP 1 Score: 81.6481 bits (200), Expect = 1.856e-13 Identity = 43/108 (39.81%), Postives = 68/108 (62.96%), Query Frame = 1 Query: 502 LGSDLSNEEKVVCVEAW----SKSIVHRAAKIFLGANLEPKVDFDMDME-TNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNYVIFSNIMTHLRLHFRRRKNF 810 LG ++ +E+VV ++ S S + A++ FL A+L DFDM+ME + GV + TGIF+CH+CR R ++ VRFSI++ Y + SN+++HL+ HF+ R F Sbjct: 412 LGPGVNYDEEVVDLDRLKQHSSASAIRLASRQFLNAHLVRGRDFDMEMEISTTPEGVKRVTGIFYCHLCREKRERTSAVRFSIARNRYPVLSNVLSHLKTHFQYRGQF 519
BLAST of SMED30027684 vs. TrEMBL
Match: A0A1S8WKI8 (Uncharacterized protein (Fragment) OS=Opisthorchis viverrini OX=6198 GN=X801_09246 PE=4 SV=1) HSP 1 Score: 81.6481 bits (200), Expect = 1.872e-13 Identity = 43/108 (39.81%), Postives = 68/108 (62.96%), Query Frame = 1 Query: 502 LGSDLSNEEKVVCVEAW----SKSIVHRAAKIFLGANLEPKVDFDMDME-TNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNYVIFSNIMTHLRLHFRRRKNF 810 LG ++ +E+VV ++ S S + A++ FL A+L DFDM+ME + GV + TGIF+CH+CR R ++ VRFSI++ Y + SN+++HL+ HF+ R F Sbjct: 148 LGPGVNYDEEVVDLDRLKQHSSASAIRLASRQFLNAHLVRGRDFDMEMEISTTPEGVKRVTGIFYCHLCREKRERTSAVRFSIARNRYPVLSNVLSHLKTHFQYRGQF 255
BLAST of SMED30027684 vs. Planmine SMEST
Match: SMESG000036851.1 (SMESG000036851.1) HSP 1 Score: 366.311 bits (939), Expect = 1.657e-128 Identity = 235/237 (99.16%), Postives = 235/237 (99.16%), Query Frame = 1 Query: 49 MDEFCKQIILEVTGSEKIIACLELCXXXXXXXXXXXXXXXXXXXENFTKECCLLMLPDQMQFYIDERFYNNPSRFLISPGIRIKLLRSVKIITERYQRKTILSLAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXQFLESISDFKLFNNNLLGSDLSNEEKVVCVEAWSKSIVHRAAKIFLGANLEPKVDFDMDMETNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNYVIF 759 MDEFCKQIILEVTGSEKIIACLELCDIKEDVDVINIDDKVIDRIENFTKECCLLMLPDQMQFYIDERFYNNPSRFLISPGIRIKLLRSVKIITERYQRKTILSLANTYSSMPNNNNNNNASNINDDGNSSVGDNNQFLESISDFKLFNNNLLGSDLSNEEKVVCVEAWSKSIVHRAAKIFLGANLEPKVDFDMDMETNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNY F Sbjct: 1 MDEFCKQIILEVTGSEKIIACLELCDIKEDVDVINIDDKVIDRIENFTKECCLLMLPDQMQFYIDERFYNNPSRFLISPGIRIKLLRSVKIITERYQRKTILSLANTYSSMPNNNNNNNASNINDDGNSSVGDNNQFLESISDFKLFNNNLLGSDLSNEEKVVCVEAWSKSIVHRAAKIFLGANLEPKVDFDMDMETNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNYKKF 237
BLAST of SMED30027684 vs. Planmine SMEST
Match: SMESG000012897.1 (SMESG000012897.1) HSP 1 Score: 115.931 bits (289), Expect = 1.776e-30 Identity = 77/249 (30.92%), Postives = 132/249 (53.01%), Query Frame = 1 Query: 49 MDEFCKQIILEVTGSEKIIACLELCXXXXXXXXXXXXXXXXXXXENFTKECCLLMLPDQMQFYIDERFYNNPSRFLISPGIRIKLLRSVKIITERYQRKTILSLAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXQFLESISDFKLFNNNLLGSDLSN-EEKVVCVEAWSKSIVHRAAKIFLGANLEPKVDFDMDMETNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNYVIFSNIMTHLRLHF 792 MD FCK I+L+ S+K+I E+C + + D++ I+D+ ++++E + L + Y+D F FL SPG+R+K+LR+VK I E Y + + A+ + ++ + +E I D + N S LS +K + W+++++ R +K F L+ DFD+D++ PK +G+F CH+CR +G + +++FS+SK NYVI SN++THL+LHF Sbjct: 1 MDNFCKSILLDYVKSDKLIFLFEICGVIKINDIMEINDETLNKMEKYIYN--FLSHEKNIDHYLDPMFIYRSPEFLFSPGLRMKILRAVKRIKEEYALQNEIQSADKERKTSIDQSDEIDNTEAVVNKQ--------VEEIKDKETDPN--FQSPLSEIAKKAEILNTWAQNVIERVSKKFTDVKLQYTEDFDLDVKILKTENGPKLSGLFICHLCRKFKGQTKSIKFSVSKENYVILSNVITHLKLHF 237
BLAST of SMED30027684 vs. Planmine SMEST
Match: SMESG000009577.1 (SMESG000009577.1) HSP 1 Score: 73.1738 bits (178), Expect = 2.557e-14 Identity = 37/83 (44.58%), Postives = 53/83 (63.86%), Query Frame = 1 Query: 553 SKSIVHRAAKIFLGANLEPKVDFDMDMETN-YQNGVPKR-TGIFHCHICRATRGSSATVRFSISKLNYVIFSNIMTHLRLHFR 795 S S + A++ F+ ANL F +DME N G P R TGIF+CH+CR R S VRFSI++ Y + SN+++HL++HF+ Sbjct: 224 SASAIRLASRQFINANLVQNRHFKIDMEVNPTSEGGPLRVTGIFNCHLCRQKRERSTPVRFSIARNRYPVMSNVLSHLKIHFQ 306
BLAST of SMED30027684 vs. Planmine SMEST
Match: SMESG000047524.1 (SMESG000047524.1) HSP 1 Score: 70.8626 bits (172), Expect = 7.470e-14 Identity = 62/255 (24.31%), Postives = 122/255 (47.84%), Query Frame = 1 Query: 49 MDEFCKQIILEVTGSEKIIACLELCXXXXXXXXXXXXXXXXXXXENFTKECCLLMLPDQMQFYIDERFYNNPSRFLISPGIRIKLLRSVKIITERYQRKTILSLAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXQFLESISDFKLFNNNLLGS------DLSNEEKVVCVEAWSKSIVHRAAKIFLGANLEPKVDFDMDMETNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNYVIFSNIMTHLRLHFR 795 M+ ++ I V S +++CLE+ ++ E D IN +D +EN+ + +M + Y+ F + P +F+ +PG+R +LL++ K+I++ S + + ++N ++ +N S+ + + + L S D++ + +E + IV AAK F+ +L P VDF + + +N G +HCH+C + + ++F SK N VI++NI +HL+ H++ Sbjct: 1 MNSRVRETIANVVESPLVLSCLEIAELLEPDDFINFSHTNVDILENYIRCRTSVMEINDRIPYLSGEFIHFPEKFMFTPGMRNRLLKAAKLISKDVYAAVFESNQTSDCESNEMSCDSNNNSTTPMNKLQPQNNISIENSLIENQFLLSPLNSSIIKQELDMNRSRHLQNMEKYYNDIVKNAAKNFIECSLIPDVDFHLSIP---ENDSTDLIGYYHCHLCTDRKKAMTKIKFRFSKYNSVIYTNINSHLKTHYQ 252
BLAST of SMED30027684 vs. Planmine SMEST
Match: SMESG000047524.1 (SMESG000047524.1) HSP 1 Score: 70.8626 bits (172), Expect = 8.151e-14 Identity = 63/261 (24.14%), Postives = 123/261 (47.13%), Query Frame = 1 Query: 31 DFYIKNMDEFCKQIILEVTGSEKIIACLELCXXXXXXXXXXXXXXXXXXXENFTKECCLLMLPDQMQFYIDERFYNNPSRFLISPGIRIKLLRSVKIITERYQRKTILSLAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXQFLESISDFKLFNNNLLGS------DLSNEEKVVCVEAWSKSIVHRAAKIFLGANLEPKVDFDMDMETNYQNGVPKRTGIFHCHICRATRGSSATVRFSISKLNYVIFSNIMTHLRLHFR 795 D M+ ++ I V S +++CLE+ ++ E D IN +D +EN+ + +M + Y+ F + P +F+ +PG+R +LL++ K+I++ S + + ++N ++ +N S+ + + + L S D++ + +E + IV AAK F+ +L P VDF + + +N G +HCH+C + + ++F SK N VI++NI +HL+ H++ Sbjct: 7 DLNDSKMNSRVRETIANVVESPLVLSCLEIAELLEPDDFINFSHTNVDILENYIRCRTSVMEINDRIPYLSGEFIHFPEKFMFTPGMRNRLLKAAKLISKDVYAAVFESNQTSDCESNEMSCDSNNNSTTPMNKLQPQNNISIENSLIENQFLLSPLNSSIIKQELDMNRSRHLQNMEKYYNDIVKNAAKNFIECSLIPDVDFHLSIP---ENDSTDLIGYYHCHLCTDRKKAMTKIKFRFSKYNSVIYTNINSHLKTHYQ 264 The following BLAST results are available for this feature:
BLAST of SMED30027684 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30027684 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30027684 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30027684 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30027684 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30027684 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30027684 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30027684 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30027684 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30027684 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30027684 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30027684 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30027684 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30027684 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 >SMED30027684 ID=SMED30027684|Name=SMED30027684|organism=Schmidtea mediterranea sexual|type=transcript|length=933bpback to top protein sequence of SMED30027684-orf-1 >SMED30027684-orf-1 ID=SMED30027684-orf-1|Name=SMED30027684-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=281bp MDEFCKQIILEVTGSEKIIACLELCDIKEDVDVINIDDKVIDRIENFTKEback to top Annotated Terms
The following terms have been associated with this transcript:
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