SMED30031782
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., 2020SMED30031782 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 11
Alignments
SMED30031782 aligns in the following genomic locations:
Homology
BLAST of SMED30031782 vs. TrEMBL
Match: A0A267FBD6 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig009290g1 PE=4 SV=1) HSP 1 Score: 62.003 bits (149), Expect = 7.758e-7 Identity = 28/77 (36.36%), Postives = 41/77 (53.25%), Query Frame = 1 Query: 82 CLAICGYTEMQHFASFNAESLANMEKYIGKACFLMNKEERKKYIDEIFIDNPKEFIFPPRCTDEILKIVASIKEYLD 312 CL +CGY + + N+E+++ AC LM +EER Y+ +IF D P +F FP IL V ++E LD Sbjct: 22 CLELCGYANARVLQGLTDAEIDNVERFVRDACQLMPQEERVAYVGQIFADCPDQFRFPAGTRKGILVGVQGLRERLD 98
BLAST of SMED30031782 vs. TrEMBL
Match: A0A267F3C9 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig030049g1 PE=4 SV=1) HSP 1 Score: 61.6178 bits (148), Expect = 8.571e-7 Identity = 28/77 (36.36%), Postives = 41/77 (53.25%), Query Frame = 1 Query: 82 CLAICGYTEMQHFASFNAESLANMEKYIGKACFLMNKEERKKYIDEIFIDNPKEFIFPPRCTDEILKIVASIKEYLD 312 CL +CGY + + N+E+++ AC LM +EER Y+ +IF D P +F FP IL V ++E LD Sbjct: 22 CLELCGYANARVLQGLTDAEIDNVERFVRDACQLMPQEERVAYVGQIFADCPDQFRFPAGTRKGILVGVQGLRERLD 98
BLAST of SMED30031782 vs. Planmine SMEST
Match: SMESG000002170.1 (SMESG000002170.1) HSP 1 Score: 548.51 bits (1412), Expect = 0.000e+0 Identity = 272/273 (99.63%), Postives = 272/273 (99.63%), Query Frame = 1 Query: 25 MEELYKIFNNKLGSSKISACLAICGYTEMQHFASFNAESLANMEKYIGKACFLMNKEERKKYIDEIFIDNPKEFIFPPRCTDEILKIVASIKEYLDMNNVPMKNTNISNSDLDDSLKLIPKIEKSDYFINLKQQSHLFKSIISPIMLNETISNEMSINSCCSSPVCEERIKEIDRLKLFYQSIKDRSNRHFLNCNLEPNIDFEVQLYKVDDVLYNSKAYFICKLCNKIRKGQSGVVVRFDITPSGNVIFRNIKIHLAKHFQILNKVIKKSKKY 843 MEELYKIFNNKLGSSKISACLAICGYTEMQHFASFN ESLANMEKYIGKACFLMNKEERKKYIDEIFIDNPKEFIFPPRCTDEILKIVASIKEYLDMNNVPMKNTNISNSDLDDSLKLIPKIEKSDYFINLKQQSHLFKSIISPIMLNETISNEMSINSCCSSPVCEERIKEIDRLKLFYQSIKDRSNRHFLNCNLEPNIDFEVQLYKVDDVLYNSKAYFICKLCNKIRKGQSGVVVRFDITPSGNVIFRNIKIHLAKHFQILNKVIKKSKKY Sbjct: 1 MEELYKIFNNKLGSSKISACLAICGYTEMQHFASFNTESLANMEKYIGKACFLMNKEERKKYIDEIFIDNPKEFIFPPRCTDEILKIVASIKEYLDMNNVPMKNTNISNSDLDDSLKLIPKIEKSDYFINLKQQSHLFKSIISPIMLNETISNEMSINSCCSSPVCEERIKEIDRLKLFYQSIKDRSNRHFLNCNLEPNIDFEVQLYKVDDVLYNSKAYFICKLCNKIRKGQSGVVVRFDITPSGNVIFRNIKIHLAKHFQILNKVIKKSKKY 273
BLAST of SMED30031782 vs. Planmine SMEST
Match: SMESG000071713.1 (SMESG000071713.1) HSP 1 Score: 86.6557 bits (213), Expect = 6.319e-19 Identity = 67/245 (27.35%), Postives = 113/245 (46.12%), Query Frame = 1 Query: 82 CLAICGYTEMQHFASFNAESLANMEKYIGKACFLMNKEERKKYIDEIFIDNPKEFIFPPRCTDEILKIVASIKEYLDMNNVPMKNTNISNSDLD-DSLKLIPKIEKSDYFINLKQQSHLFKSIISP---IMLNETISNEMSINSCCSSPVCEERIKEIDRLKLFYQSIKDRSNRHFLNCNLEPNIDFEVQLYKVDDVLYNSKAYFICKLCNKIRKGQSGVVVRFDITPSGNVIFRNIKIHLAKHF 804 C +CGY+ +F+ E N+E+YI C + ERKKY+++ F NP+ F F P EILK A I +D+ + ++N ++ +P +E S+ FI Q + + SP I ++ IS E+S ++ S + + I E + ++ F +CNL+ + F + + + YF CK+C K+ +F + G++ F NIK+HL HF Sbjct: 17 CFNLCGYSSYDQLYNFDEEDFENLERYIRNYCSNLTIGERKKYVNDTFAINPQHFTFSPLVKSEILKKCAKISGQIDLQRIMGTPKLLNNFTFQPENNSKLPAVECSESFIVSYQNQNSNSYVNSPSLEIDVSNDISMELSFSNNDDSYLANDSIHEY---------VMKTASLKFKDCNLKKHEHFNIFKLNSNKLT----GYFQCKICPKVH--DKFKTYKFSFSNYGSLNFMNIKVHLLTHF 246
BLAST of SMED30031782 vs. Planmine SMEST
Match: SMESG000072339.1 (SMESG000072339.1) HSP 1 Score: 81.6481 bits (200), Expect = 1.921e-17 Identity = 74/281 (26.33%), Postives = 122/281 (43.42%), Query Frame = 1 Query: 34 LYKIFNNKLGSSKISACLAICGYTEMQHFASFNAESLANMEKYIGKACFLMNKEERKKYIDEIFIDNPKEFIFPPRCTDEILKIVASIKEYLDMNNVPMK----NTNISNSDLDDSLKLIPKIEKSDYFINLKQQSHLFKSIISPIMLNETISNEMSINSCCSSPVCEERI--------------KEIDR------LKLFYQSIKDRSNRHFLNCNLEPNIDFEVQLYKVDDVLYNSKAYFICKLCNKIRKGQSGVVVRFDITPSGNVIFRNIKIHLAKHF 804 ++ N GSSK SA +C + + SFN S+ ME+YI C LM+ ER Y+D I NPK F+ P + I K V++I ++ ++ + N N + D++ + I+ N+ F S T N ++ S +P+ ++I K++D+ + FY +I + +F NC+L P DF++++ NSK Y++C LCN G +V+F++ I IK H HF Sbjct: 5 IFDALNYLTGSSKTSARFKLCDFNTITDLLSFNDTSIDKMEEYIQLQCSLMDLAERSIYLDGDDIQNPKCFMISPGLRNRICKAVSTIVNSMNGASLSLSQKLLNHNFIDYGFKDNIVSVKNIKPLSITDNMFMNQKSFNSTNIQTKALATSKNNLANISKLYTPINSKKIVKSSNKLDNPIARGKKVDQKLIELVTENFYHTIANDQPLNFDNCHLIPKKDFDIKINLNYKNFQNSKFYYVCNLCN-------GKLVKFNLNKDLKPIQTGIKSHNRTHF 278
BLAST of SMED30031782 vs. Planmine SMEST
Match: SMESG000003620.1 (SMESG000003620.1) HSP 1 Score: 78.9518 bits (193), Expect = 7.343e-17 Identity = 68/266 (25.56%), Postives = 115/266 (43.23%), Query Frame = 1 Query: 34 LYKIFNNKLGSSKISACLAICGYTEMQHFASFNAESLANMEKYIGKACFLMNKEERKKYIDEIFIDNPKEFIFPPRCTDEILKIVASIKEYLDMNNVPMKNTN-------ISNSDLDDSLKLIPKIEKSDYFINLKQQSHLFKSIISPIMLNETISNEMSINSCCSSPVCEERIKEIDRLKLFYQSIKDRSNRHFLNCNLEPNIDFEVQLYKVDDVLYNSKAYFICKLCNKIRKGQSGVVVRFDITPSGNVIFRNIKIHLAKHFQI 810 ++ N +GS +I ACL +CGY F FN+E++ +EKY+ C +++++R KYID IF+D P+ F P ++ + + + N+ +TN + + L DS L K ++ I Q + F + IS N I + + CS EE + Q+IK F N L DF++ + Y++CK+ + + + V V F+ N+ N+ HL HF + Sbjct: 3 FFESVNKAIGSKRIGACLQLCGYNSTSDFQDFNSETVKEIEKYVSNVCCALDRDKRSKYIDPIFVDRPELFTISPVIKSRLIAFIQQANSFGQICNMFGMSTNFECLDELTTENPLSDSKSLQIKEIPNEEDIKTPQLVNSFSTSISS---NNEIEDNSESYTLCSKETMEELVA--------MQAIK------FENFTLTVGDDFDL----FQSTSCPNSGYYLCKMKSDCKSHKEKVNVTFNKENLPNL--GNVNNHLRVHFSL 245
BLAST of SMED30031782 vs. Planmine SMEST
Match: SMESG000072336.1 (SMESG000072336.1) HSP 1 Score: 78.5666 bits (192), Expect = 1.097e-15 Identity = 68/261 (26.05%), Postives = 121/261 (46.36%), Query Frame = 1 Query: 61 GSSKISACLAICGYTEMQHFASFNAESLANMEKYIGKACFLMNKEERKKYIDEIFIDNPKEFIFPPRCTDEILKIVASIKEYLDMNNV----------PMKNTNISNSDLDDSLKLIPKIEKSDYFINLKQQSHLFKSIISPIMLNETISNEMSINSCCSSPVCEERIKEIDRLKLFYQSIKDR----SNRHFLNCNLEPNIDFEVQLYKVDDVLYNSKAYFICKLCNKIRKGQSGVVVRFDITPSGNVIFRNIKIHLAKH 801 G K+ CL +C + + F +FN +S+ N+++Y+ C +M+ EERK Y+DE I NP+++ P + +LK V I + +N V P K + N+D +S L K + Q K +IS + ++ I E ++ S+ V ID + F++ +++ N H + +P I F+++ + +++ S YFIC CNK + ++F + + F +IK HL H Sbjct: 18 GRPKLVQCLKLCKFRSILDFINFNDKSIDNVQEYVRIICSIMSVEERKMYLDEDDIPNPQDYFITPGIRNRLLKAVTVILASIGINKVKSNDLFNHKTPPKRFELENNDFPNSNALEFSPSKK---PSSSPQVKYRKRLISKSIESKEIGYEHRLSKASSNCVESTTEDPIDEFRGFFKHVRNNLLGFYNEHKMESKHKPKIHFDLEFH-IENDTKKSFGYFICFNCNKKK-------LKFSFSSKMVISFGSIKSHLKTH 267 The following BLAST results are available for this feature:
BLAST of SMED30031782 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30031782 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30031782 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30031782 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30031782 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30031782 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30031782 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30031782 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 2
BLAST of SMED30031782 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30031782 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30031782 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30031782 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30031782 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30031782 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 >SMED30031782 ID=SMED30031782|Name=SMED30031782|organism=Schmidtea mediterranea sexual|type=transcript|length=983bpback to top protein sequence of SMED30031782-orf-1 >SMED30031782-orf-1 ID=SMED30031782-orf-1|Name=SMED30031782-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=274bp MEELYKIFNNKLGSSKISACLAICGYTEMQHFASFNAESLANMEKYIGKAback to top Annotated Terms
The following terms have been associated with this transcript:
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