SMED30031701
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., 2020SMED30031701 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 3
Alignments
SMED30031701 aligns in the following genomic locations:
Homology
BLAST of SMED30031701 vs. TrEMBL
Match: I1ZID3 (Uncharacterized protein OS=Schmidtea mediterranea OX=79327 PE=2 SV=1) HSP 1 Score: 68.9366 bits (167), Expect = 3.498e-9 Identity = 82/341 (24.05%), Postives = 144/341 (42.23%), Query Frame = 3 Query: 18 MNIDIPNAIAYLCEFPKVANWLELCKFELMDDFLNFNNNTVDKIEKYIQIQCSLMPINVRQLYLNESDLLS-PTKFLISPGLRNRLLKAVDILVSYFE------------------------------------MNSLNNSIHKSFC-------MENMLYQKLSETDSGNNTNNNLMFSANI-------------------LDISENDSRISAPKHDESTNSSQTLGYESTLEVINNNDSEICLANQSKDLQVGEFKINIDQYFEDFVEVLKRE-LDFNLVPKENFDLEFHFNSDSISNSYGNYICYYC-----NKKKLKFKFTAMLKVVYGNIKSHLKKH 833 M+ ++ N I L V NWLELC FE ++D N N + +E YI CS M + R+ Y++ + P +F +P L++RLL D + F +S++NSI +SF +E LYQ S+ D + T N F+ +I L I + H + + S ++ +S + + EI L S+ + + + K++ + + ++ +++ +D +LV +F++ + DS + G ++CY C N+ K+KF FT+ VV+ NI +HL+ H Sbjct: 1 MDENLKNLIQELTSSQLVINWLELCGFETLEDIEYLNENVIADMESYIGSICSSMSFDEREKYIHVNLFKKFPQQFKFTPCLKSRLLNVADAISRQFNKSSQINRSGPFLSKFVQKFNKDYLADNGYRLCSRDLYDSVSNSIRRSFQNIKYRFDLEFDLYQ--SDKDEKHETKNGF-FACSINQHNEICGEFIKFYIDQDSLSIDIEPILVHIELHLDRKSESSSIKTKSRIL----SSVEIDLNKSSRSIDLADAKLSNNFIHNEIIKFAEQKFIDCHLVQDIDFNVYEIIDDDSSLTNRGCFLCYICLKTKSNESKIKFFFTSTRSVVFTNIVAHLRIH 334
BLAST of SMED30031701 vs. Planmine SMEST
Match: SMESG000072330.1 (SMESG000072330.1) HSP 1 Score: 552.747 bits (1423), Expect = 0.000e+0 Identity = 274/276 (99.28%), Postives = 275/276 (99.64%), Query Frame = 3 Query: 18 MNIDIPNAIAYLCEFPKVANWLELCKFELMDDFLNFNNNTVDKIEKYIQIQCSLMPINVRQLYLNESDLLSPTKFLISPGLRNRLLKAVDILVSYFEMNSLNNSIHKSFCMENMLYQKLSETDSGNNTNNNLMFSANILDISENDSRISAPKHDESTNSSQTLGYESTLEVINNNDSEICLANQSKDLQVGEFKINIDQYFEDFVEVLKRELDFNLVPKENFDLEFHFNSDSISNSYGNYICYYCNKKKLKFKFTAMLKVVYGNIKSHLKKHPLNS 845 MNIDIPNAIAYLCEFPKVANWLELCKFELMDDFLNFNNNTVDKIEKYIQIQCSLMPINVRQLYLNESDLLSPTKFLISPGLRNRLLKAVDILVSYFE+NSLNNSIHKSFCMENMLYQKLSETDSGNNTNNNLMFSANILDISENDSRISAPKH ESTNSSQTLGYESTLEVINNNDSEICLANQSKDLQVGEFKINIDQYFEDFVEVLKRELDFNLVPKENFDLEFHFNSDSISNSYGNYICYYCNKKKLKFKFTAMLKVVYGNIKSHLKKHPLNS Sbjct: 1 MNIDIPNAIAYLCEFPKVANWLELCKFELMDDFLNFNNNTVDKIEKYIQIQCSLMPINVRQLYLNESDLLSPTKFLISPGLRNRLLKAVDILVSYFEINSLNNSIHKSFCMENMLYQKLSETDSGNNTNNNLMFSANILDISENDSRISAPKHYESTNSSQTLGYESTLEVINNNDSEICLANQSKDLQVGEFKINIDQYFEDFVEVLKRELDFNLVPKENFDLEFHFNSDSISNSYGNYICYYCNKKKLKFKFTAMLKVVYGNIKSHLKKHPLNS 276
BLAST of SMED30031701 vs. Planmine SMEST
Match: SMESG000072336.1 (SMESG000072336.1) HSP 1 Score: 143.28 bits (360), Expect = 1.973e-37 Identity = 91/274 (33.21%), Postives = 157/274 (57.30%), Query Frame = 3 Query: 36 NAIAYLCEFPKVANWLELCKFELMDDFLNFNNNTVDKIEKYIQIQCSLMPINVRQLYLNESDLLSPTKFLISPGLRNRLLKAVDILVSYFEMNSLNNSI---HKS----FCMENMLYQKLSETDSGNNTNNNLMFSANILDISENDSRISAPKHDESTNSSQTLGYESTLEVINNNDSEICLANQSKDLQVGEFKINIDQYFEDFVEVL-KRELDFNLVPKENFDLEFHFNSDSISNSYGNYICYYCNKKKLKFKFTAMLKVVYGNIKSHLKKH 833 + I+ L PK+ L+LCKF + DF+NFN+ ++D +++Y++I CS+M + R++YL+E D+ +P + I+PG+RNRLLKAV ++++ +N + ++ HK+ F +EN D N +N L FS + S + +S S + +GYE L ++N C+ + ++D + EF+ + + + +++ PK +FDLEFH +D+ S+G +IC+ CNKKKLKF F++ + + +G+IKSHLK H Sbjct: 11 DVISILTGRPKLVQCLKLCKFRSILDFINFNDKSIDNVQEYVRIICSIMSVEERKMYLDEDDIPNPQDYFITPGIRNRLLKAVTVILASIGINKVKSNDLFNHKTPPKRFELEN--------NDFPN--SNALEFSPSKKPSSSPQVKYRKRLISKSIESKE-IGYEHRLSKASSN----CVESTTED-PIDEFRGFFKHVRNNLLGFYNEHKMESKHKPKIHFDLEFHIENDT-KKSFGYFICFNCNKKKLKFSFSSKMVISFGSIKSHLKTH 267
BLAST of SMED30031701 vs. Planmine SMEST
Match: SMESG000072339.1 (SMESG000072339.1) HSP 1 Score: 118.242 bits (295), Expect = 1.051e-30 Identity = 92/290 (31.72%), Postives = 146/290 (50.34%), Query Frame = 3 Query: 18 MNIDIPNAIAYLCEFPKVANWLELCKFELMDDFLNFNNNTVDKIEKYIQIQCSLMPINVRQLYLNESDLLSPTKFLISPGLRNRLLKAVDILVSYFEMNSLNNSIHKSFCMENMLYQKLSETDSGNNTNNNLMFSANILDISENDSRISAPKHDESTNSSQTLGYESTLEVINN--------NDSEICLANQSKDLQVGEFKINIDQYF-----EDFVEVLKRELDFN-----LVPKENFDLEFHFNSDSISNSYGNYICYYCNKKKLKFKFTAMLKVVYGNIKSHLKKH 833 M+I+I +A+ YL K + +LC F + D L+FN+ ++DK+E+YIQ+QCSLM + R +YL+ D+ +P F+ISPGLRNR+ KAV +V+ MN + S+ + N + D G +N++ NI +S D+ K STN QT ++ + N N +I ++ D + K +DQ E+F + + N L+PK++FD++ + N + NS Y+C CN K +KF LK + IKSH + H Sbjct: 1 MDINIFDALNYLTGSSKTSARFKLCDFNTITDLLSFNDTSIDKMEEYIQLQCSLMDLAERSIYLDGDDIQNPKCFMISPGLRNRICKAVSTIVN--SMNGASLSLSQKLLNHNFI-------DYG--FKDNIVSVKNIKPLSITDNMFMNQKSFNSTN-IQTKALATSKNNLANISKLYTPINSKKIVKSSNKLDNPIARGK-KVDQKLIELVTENFYHTIANDQPLNFDNCHLIPKKDFDIKINLNYKNFQNSKFYYVCNLCNGKLVKFNLNKDLKPIQTGIKSHNRTH 277
BLAST of SMED30031701 vs. Planmine SMEST
Match: SMESG000047524.1 (SMESG000047524.1) HSP 1 Score: 94.7449 bits (234), Expect = 3.919e-22 Identity = 84/285 (29.47%), Postives = 138/285 (48.42%), Query Frame = 3 Query: 18 MNIDIPNAIAYLCEFPKVANWLELCKFELMDDFLNFNNNTVDKIEKYIQIQCSLMPINVRQLYLNESDLLSPTKFLISPGLRNRLLKAV-----DILVSYFEMNSLNNSIHKSFCMENMLYQKLSETDSGNNTNNNLMFSANILDISENDSRISAPKHDESTNSSQTLGYESTLEVINNNDSEICLANQSKDLQVGEFKINIDQYFEDFVE-VLKRELDFNLVPKENFDLEFHFN--SDSISNSYGNYICYYCNKK-----KLKFKFTAMLKVVYGNIKSHLKKH 833 MN + IA + E P V + LE+ + DDF+NF++ VD +E YI+ + S+M IN R YL+ + P KF+ +PG+RNRLLKA D+ + FE N S C N + ++NNN N L P+++ S +S + + L +N++ + Q D+ N+++Y+ D V+ K ++ +L+P D++FH + + ++ G Y C+ C + K+KF+F+ V+Y NI SHLK H Sbjct: 1 MNSRVRETIANVVESPLVLSCLEIAELLEPDDFINFSHTNVDILENYIRCRTSVMEINDRIPYLSGEFIHFPEKFMFTPGMRNRLLKAAKLISKDVYAAVFESN------QTSDCESNEM---------SCDSNNNSTTPMNKL----------QPQNNISIENS-LIENQFLLSPLNSS-----IIKQELDMNRSRHLQNMEKYYNDIVKNAAKNFIECSLIP----DVDFHLSIPENDSTDLIGYYHCHLCTDRKKAMTKIKFRFSKYNSVIYTNINSHLKTH 250
BLAST of SMED30031701 vs. Planmine SMEST
Match: SMESG000047524.1 (SMESG000047524.1) HSP 1 Score: 94.7449 bits (234), Expect = 4.912e-22 Identity = 84/285 (29.47%), Postives = 138/285 (48.42%), Query Frame = 3 Query: 18 MNIDIPNAIAYLCEFPKVANWLELCKFELMDDFLNFNNNTVDKIEKYIQIQCSLMPINVRQLYLNESDLLSPTKFLISPGLRNRLLKAV-----DILVSYFEMNSLNNSIHKSFCMENMLYQKLSETDSGNNTNNNLMFSANILDISENDSRISAPKHDESTNSSQTLGYESTLEVINNNDSEICLANQSKDLQVGEFKINIDQYFEDFVE-VLKRELDFNLVPKENFDLEFHFN--SDSISNSYGNYICYYCNKK-----KLKFKFTAMLKVVYGNIKSHLKKH 833 MN + IA + E P V + LE+ + DDF+NF++ VD +E YI+ + S+M IN R YL+ + P KF+ +PG+RNRLLKA D+ + FE N S C N + ++NNN N L P+++ S +S + + L +N++ + Q D+ N+++Y+ D V+ K ++ +L+P D++FH + + ++ G Y C+ C + K+KF+F+ V+Y NI SHLK H Sbjct: 13 MNSRVRETIANVVESPLVLSCLEIAELLEPDDFINFSHTNVDILENYIRCRTSVMEINDRIPYLSGEFIHFPEKFMFTPGMRNRLLKAAKLISKDVYAAVFESN------QTSDCESNEM---------SCDSNNNSTTPMNKL----------QPQNNISIENS-LIENQFLLSPLNSS-----IIKQELDMNRSRHLQNMEKYYNDIVKNAAKNFIECSLIP----DVDFHLSIPENDSTDLIGYYHCHLCTDRKKAMTKIKFRFSKYNSVIYTNINSHLKTH 262 The following BLAST results are available for this feature:
BLAST of SMED30031701 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30031701 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30031701 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30031701 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30031701 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30031701 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30031701 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30031701 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 1
BLAST of SMED30031701 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30031701 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30031701 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30031701 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30031701 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30031701 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 >SMED30031701 ID=SMED30031701|Name=SMED30031701|organism=Schmidtea mediterranea sexual|type=transcript|length=1025bpback to top protein sequence of SMED30031701-orf-1 >SMED30031701-orf-1 ID=SMED30031701-orf-1|Name=SMED30031701-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=277bp MNIDIPNAIAYLCEFPKVANWLELCKFELMDDFLNFNNNTVDKIEKYIQIback to top Annotated Terms
The following terms have been associated with this transcript:
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