SMED30026593
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., 2020SMED30026593 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 1
Alignments
SMED30026593 aligns in the following genomic locations:
Homology
BLAST of SMED30026593 vs. TrEMBL
Match: I1ZIH9 (IAP domain containing-1 (Fragment) OS=Schmidtea mediterranea OX=79327 PE=2 SV=1) HSP 1 Score: 115.931 bits (289), Expect = 1.699e-28 Identity = 55/56 (98.21%), Postives = 55/56 (98.21%), Query Frame = -3 Query: 225 TERLLCLTCNFCKKNQVSILYEPCYHVVICRTCFVSSMKICQVCNAPIHQYHLIYI 392 TERLLCLTCNFCKKNQVSILYEPCYHVVICRTCFVSSMKICQVCN PIHQYHLIYI Sbjct: 1 TERLLCLTCNFCKKNQVSILYEPCYHVVICRTCFVSSMKICQVCNVPIHQYHLIYI 56
BLAST of SMED30026593 vs. Planmine SMEST
Match: SMESG000067829.1 (SMESG000067829.1) HSP 1 Score: 617.461 bits (1591), Expect = 0.000e+0 Identity = 307/310 (99.03%), Postives = 309/310 (99.68%), Query Frame = -3 Query: 225 MFRKKTKLLCYIFDEIKIFLGTDYISVDYYQLYEISESLTHFLIEYFHEKLAFSQPLLKLCCFVMHKNQIDISKENVFDCFWELMELRLKENYRIIINSWILNIDLIQRKILEIRKDKSVDYLKCQICGSCQVEISSLTRNNVVLCFGCYRFDRISSLIKFYQSFKPRELLSLLKSFEHEYVGSLHREFSYDVSLLKLCSWLEQSNGNLSKKGLSDCYRKLLIYKTIKKEFEKTFANIEKYVDEIEKQIPILLKTERLLCLTCNFCKKNQVSILYEPCYHVVICRTCFVSSMKICQVCNAPIHQYHLIYI 1154 MFRKKTKLLCYIFDEIKIFLGTDYISVDYYQLYEISESLTHFLIEYFHEKLAFSQPLLKLCCFVMHKNQIDISKENVFDCFWELMELRLKENYRIIINSWILNIDLIQ+KILEIRKDKSVDYLKCQICGSCQVEISSLTRNNVVLCFGCYRFDRISSLIKFYQSFKPRELLSLLKSFEHEYVGSLHREFSYD+SLLKLCSWLEQSNGNLSKKGLSDCYRKLLIYKTIKKEFEKTFANIEKYVDEIEKQIPILLKTERLLCLTCNFCKKNQVSILYEPCYHVVICRTCFVSSMKICQVCN PIHQYHLIYI Sbjct: 1 MFRKKTKLLCYIFDEIKIFLGTDYISVDYYQLYEISESLTHFLIEYFHEKLAFSQPLLKLCCFVMHKNQIDISKENVFDCFWELMELRLKENYRIIINSWILNIDLIQQKILEIRKDKSVDYLKCQICGSCQVEISSLTRNNVVLCFGCYRFDRISSLIKFYQSFKPRELLSLLKSFEHEYVGSLHREFSYDISLLKLCSWLEQSNGNLSKKGLSDCYRKLLIYKTIKKEFEKTFANIEKYVDEIEKQIPILLKTERLLCLTCNFCKKNQVSILYEPCYHVVICRTCFVSSMKICQVCNVPIHQYHLIYI 310
BLAST of SMED30026593 vs. Planmine SMEST
Match: SMESG000067794.1 (SMESG000067794.1) HSP 1 Score: 92.0485 bits (227), Expect = 1.426e-21 Identity = 61/162 (37.65%), Postives = 92/162 (56.79%), Query Frame = -3 Query: 225 SLIKFYQSFKPRELLSLLKSFEHEYVGSLHREFSYDVSLLKLCSWLEQSN-GNLSKKGLSDCYRKLLIYK-------TIKKEFEKTFANIEKYVDEIEKQIPILLKTERLLCLTCNFCKKNQVSILYEPCYHVVICRTCFVSSMKICQVCNAPIHQYHLIYI 686 L+ Q+ +P +L + +S H + L + F ++ S+LK+C+ L Q N + + L+D + K + TI + + + F IEK+++E K+ K++ LTC CK+NQVSILY PC H+V C TCFVSS K CQVC PI +HLIY+ Sbjct: 48 DLVSNPQNIEPFQLAQISESLRHPSIRFLRQTFDFNESILKMCTCLLQLNLMEIDNEILNDYFWKFSTLRLTDPDSRTIIQYWLENFEKIEKFIEERLKEFS---KSK----LTCFECKENQVSILYLPCGHLVTCGTCFVSSRKHCQVCETPIDNFHLIYL 202 HSP 2 Score: 67.0106 bits (162), Expect = 1.228e-12 Identity = 44/136 (32.35%), Postives = 73/136 (53.68%), Query Frame = -3 Query: 693 LGTDYISVDYYQLYEISESLTHFLIEYFHEKLAFSQPLLKLCCFVMHKNQIDISKENVFDCFWELMELRLKE-NYRIIINSWILNIDLIQRKILEIRKDKSVDYLKCQICGSCQVEISSLTRNNVVLCFGCYRFDR 1097 L ++ +++ +QL +ISESL H I + + F++ +LK+C ++ N ++I E + D FW+ LRL + + R II W+ N + I++ I E K+ S L C C QV I L ++V C C+ R Sbjct: 49 LVSNPQNIEPFQLAQISESLRHPSIRFLRQTFDFNESILKMCTCLLQLNLMEIDNEILNDYFWKFSTLRLTDPDSRTIIQYWLENFEKIEKFIEERLKEFSKSKLTCFECKENQVSILYLPCGHLVTCGTCFVSSR 184
BLAST of SMED30026593 vs. Planmine SMEST
Match: SMESG000067794.1 (SMESG000067794.1) HSP 1 Score: 92.0485 bits (227), Expect = 1.503e-21 Identity = 61/162 (37.65%), Postives = 92/162 (56.79%), Query Frame = -3 Query: 225 SLIKFYQSFKPRELLSLLKSFEHEYVGSLHREFSYDVSLLKLCSWLEQSN-GNLSKKGLSDCYRKLLIYK-------TIKKEFEKTFANIEKYVDEIEKQIPILLKTERLLCLTCNFCKKNQVSILYEPCYHVVICRTCFVSSMKICQVCNAPIHQYHLIYI 686 L+ Q+ +P +L + +S H + L + F ++ S+LK+C+ L Q N + + L+D + K + TI + + + F IEK+++E K+ K++ LTC CK+NQVSILY PC H+V C TCFVSS K CQVC PI +HLIY+ Sbjct: 49 DLVSNPQNIEPFQLAQISESLRHPSIRFLRQTFDFNESILKMCTCLLQLNLMEIDNEILNDYFWKFSTLRLTDPDSRTIIQYWLENFEKIEKFIEERLKEFS---KSK----LTCFECKENQVSILYLPCGHLVTCGTCFVSSRKHCQVCETPIDNFHLIYL 203 HSP 2 Score: 66.6254 bits (161), Expect = 1.298e-12 Identity = 44/136 (32.35%), Postives = 73/136 (53.68%), Query Frame = -3 Query: 693 LGTDYISVDYYQLYEISESLTHFLIEYFHEKLAFSQPLLKLCCFVMHKNQIDISKENVFDCFWELMELRLKE-NYRIIINSWILNIDLIQRKILEIRKDKSVDYLKCQICGSCQVEISSLTRNNVVLCFGCYRFDR 1097 L ++ +++ +QL +ISESL H I + + F++ +LK+C ++ N ++I E + D FW+ LRL + + R II W+ N + I++ I E K+ S L C C QV I L ++V C C+ R Sbjct: 50 LVSNPQNIEPFQLAQISESLRHPSIRFLRQTFDFNESILKMCTCLLQLNLMEIDNEILNDYFWKFSTLRLTDPDSRTIIQYWLENFEKIEKFIEERLKEFSKSKLTCFECKENQVSILYLPCGHLVTCGTCFVSSR 185
BLAST of SMED30026593 vs. Planmine SMEST
Match: SMESG000067788.1 (SMESG000067788.1) HSP 1 Score: 90.5077 bits (223), Expect = 6.984e-21 Identity = 56/158 (35.44%), Postives = 86/158 (54.43%), Query Frame = -3 Query: 225 RISSLIKFYQSFKPRELLSLLKSFEHEYVGSLHREFSYDVSLLKLCSWLEQSNG-NLSKKGLSDCYRKLLIYKTIKKEFEKTFANIEKYVDEIEKQIPILLKTERLLCLTCNFCKKNQVSILYEPCYHVVICRTCFVSSMKICQVCNAPIHQYHLIYI 695 I L + Y + LL +LK F++ + H F Y+ +LKLCS+L + N N++ + L+D + +F N+ + +D IEK++ ++K LTC C+KN VSILY PC HVV+C C+ S K CQ C + I ++H+IYI Sbjct: 68 EIDELFRNYAKLNSKILLEILKLFKNSSIKFCHETFGYNKKILKLCSFLMERNKVNINHENLNDYFW--------------SFMNLSQ-LDGIEKEMCEIVKERNKQLLTCMGCQKNSVSILYLPCGHVVMCNKCYQISTKHCQACGSSIEEFHVIYI 210 HSP 2 Score: 62.7734 bits (151), Expect = 3.654e-11 Identity = 38/129 (29.46%), Postives = 67/129 (51.94%), Query Frame = -3 Query: 702 DYISVDYYQLYEISESLTHFLIEYFHEKLAFSQPLLKLCCFVMHKNQIDISKENVFDCFWELMELRLKENYRIIINSWILNIDLIQRKILEIRKDKSVDYLKCQICGSCQVEISSLTRNNVVLCFGCYR 1088 +Y ++ L EI + + I++ HE +++ +LKLC F+M +N+++I+ EN+ D FW M L +D I++++ EI K+++ L C C V I L +VV+C CY+ Sbjct: 75 NYAKLNSKILLEILKLFKNSSIKFCHETFGYNKKILKLCSFLMERNKVNINHENLNDYFWSFMNLS--------------QLDGIEKEMCEIVKERNKQLLTCMGCQKNSVSILYLPCGHVVMCNKCYQ 189
BLAST of SMED30026593 vs. Planmine SMEST
Match: SMESG000067789.1 (SMESG000067789.1) HSP 1 Score: 87.4261 bits (215), Expect = 9.987e-20 Identity = 52/160 (32.50%), Postives = 86/160 (53.75%), Query Frame = -3 Query: 225 ISSLIKFYQSFKPRELLSLLKSFEHEYVGSLHREFSYDVSLLKLCSWLEQSNGNLSKKGLSDCYRKLLIYK----TIKKEFEKTFANIEKYVDEIEKQIPILLKTERLLCLTCNFCKKNQVSILYEPCYHVVICRTCFVSSMKICQVCNAPIHQYHLIYI 692 + I Y +F +E++++LK F++ + L F+YD +LKL S+L L K G+ + + + E+ + F + D IE ++ L + LTC+ CK+NQVS+LY PC HV++C C + + CQ C+API++YH IY+ Sbjct: 56 VEDFINTYDTFTDKEIINILKIFKNPSIEYLIDIFNYDKCILKLSSYLMY----LDKTGMDNDSLNEYFWDCMELRLNPEYSRLFKEWIRKSDFIEDKLTEKLNDVKKRYLTCSICKENQVSVLYLPCGHVIVCSKCQDKNNRKCQACSAPINEYHAIYV 211 HSP 2 Score: 60.077 bits (144), Expect = 3.026e-10 Identity = 33/106 (31.13%), Postives = 55/106 (51.89%), Query Frame = -3 Query: 708 IEYFHEKLAFSQPLLKLCCFVMHKNQIDISKENVFDCFWELMELRLKENYRIIINSWILNIDLIQRKILEIRKDKSVDYLKCQICGSCQVEISSLTRNNVVLCFGC 1025 IEY + + + +LKL ++M+ ++ + +++ + FW+ MELRL Y + WI D I+ K+ E D YL C IC QV + L +V++C C Sbjct: 83 IEYLIDIFNYDKCILKLSSYLMYLDKTGMDNDSLNEYFWDCMELRLNPEYSRLFKEWIRKSDFIEDKLTEKLNDVKKRYLTCSICKENQVSVLYLPCGHVIVCSKC 188 The following BLAST results are available for this feature:
BLAST of SMED30026593 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30026593 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30026593 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30026593 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30026593 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30026593 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30026593 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30026593 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 1
BLAST of SMED30026593 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30026593 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30026593 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30026593 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30026593 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30026593 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 >SMED30026593 ID=SMED30026593|Name=SMED30026593|organism=Schmidtea mediterranea sexual|type=transcript|length=1237bpback to top protein sequence of SMED30026593-orf-1 >SMED30026593-orf-1 ID=SMED30026593-orf-1|Name=SMED30026593-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=311bp MFRKKTKLLCYIFDEIKIFLGTDYISVDYYQLYEISESLTHFLIEYFHEKback 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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