SMED30031196
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., 2020SMED30031196 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 1
Alignments
SMED30031196 aligns in the following genomic locations:
Homology
BLAST of SMED30031196 vs. Planmine SMEST
Match: SMESG000071516.1 (SMESG000071516.1) HSP 1 Score: 892.878 bits (2306), Expect = 0.000e+0 Identity = 480/482 (99.59%), Postives = 481/482 (99.79%), Query Frame = 2 Query: 248 MIEQIQQYWIIILIRMFHYPIKCLLFVFLLFEKFDIDSSVGEVENICSIFHSVIIFLSISTQVFYLVRYFNSTNILRKVKIQNPPFLISNFIIGIFAVTCEYLEVVFFRESNNFYEILYKXXXXXXXXXXXXXXXXXXKWRPDPDERFSITLSIFSGYMTFICCVYSSIRCVLPDKRSKPKLQIFCSAFLFINSILIYNPLYGDIKTILKRQYYYENLDNTVAQTNTEIHTNLQSGLPLLNSMLNIFRKIQINFLTVFIGCYLLSILLYASFVCFQLDKNFIFKNMTNDSQNILVFYNECQISVYVILIIISMLYLHKIFQWKFEKNIRSNNDCWIVNIGTFGQVMEAITISYVSFIKLSDDCHLKFLYLSXXXXXXXXXXXXGQRFVILEILQRKVKKLRSRNYETNFFRRITINHCAVLCIANLGFVLINILHYSQAMDKIQMSKGRTWILIRCILVLISTLNRLHGFAFFLDVLLTDFE 1693 MIEQIQQYWIIILIRMFHYPIKCLLFVFLLFEKFDIDSSVGEVENICSIFHSVIIFLSISTQVFYLVRYFNST+ILRKVKIQNPPFLISNFIIGIFAVTCEYLEVVFFRESNNFYEILYKFPLIAFDLLLFIFIPIFLKWRPDPDERFSITLSIFSGYMTFICCVYSSIRCVLPDKRSKPKLQIFCSAFLFINSILIYNPLYGDIKTILKRQYYYENLDNTVAQTNTEIHTNLQSGL LLNSMLNIFRKIQINFLTVFIGCYLLSILLYASFVCFQLDKNFIFKNMTNDSQNILVFYNECQISVYVILIIISMLYLHKIFQWKFEKNIRSNNDCWIVNIGTFGQVMEAITISYVSFIKLSDDCHLKFLYLSIVLNILQIIQIVGQRFVILEILQRKVKKLRSRNYETNFFRRITINHCAVLCIANLGFVLINILHYSQAMDKIQMSKGRTWILIRCILVLISTLNRLHGFAFFLDVLLTDFE Sbjct: 1 MIEQIQQYWIIILIRMFHYPIKCLLFVFLLFEKFDIDSSVGEVENICSIFHSVIIFLSISTQVFYLVRYFNSTDILRKVKIQNPPFLISNFIIGIFAVTCEYLEVVFFRESNNFYEILYKFPLIAFDLLLFIFIPIFLKWRPDPDERFSITLSIFSGYMTFICCVYSSIRCVLPDKRSKPKLQIFCSAFLFINSILIYNPLYGDIKTILKRQYYYENLDNTVAQTNTEIHTNLQSGLSLLNSMLNIFRKIQINFLTVFIGCYLLSILLYASFVCFQLDKNFIFKNMTNDSQNILVFYNECQISVYVILIIISMLYLHKIFQWKFEKNIRSNNDCWIVNIGTFGQVMEAITISYVSFIKLSDDCHLKFLYLSIVLNILQIIQIVGQRFVILEILQRKVKKLRSRNYETNFFRRITINHCAVLCIANLGFVLINILHYSQAMDKIQMSKGRTWILIRCILVLISTLNRLHGFAFFLDVLLTDFE 482
BLAST of SMED30031196 vs. Planmine SMEST
Match: SMESG000071518.1 (SMESG000071518.1) HSP 1 Score: 155.606 bits (392), Expect = 4.549e-41 Identity = 153/494 (30.97%), Postives = 244/494 (49.39%), Query Frame = 2 Query: 248 MIEQIQQYWIIILIRMFHYPIKCLLFVFLLFEKFDIDSSVGEVENICSI-----FHSVIIFLSISTQVFYLVRYFNSTNILRKVKIQNPPFLISNFIIGIFAVTCEYLEVVFFRESNNFYEILYKXXXXXXXXXXXXXXXXXXKWRPDPDERFSITLSIFSGYMTFICCVYSSIRCVL------PDKRSKPKLQIFCSAFLFINSILIYNPLYGDIKTILKRQYYYENLDNTVAQTNTEIHTNLQSGLPLLNSMLNIFR-KIQINFLTVFIGCYLLSILLYASFVCFQLDKNFIFKNMTNDSQNILVFYNECQISVYVILIIISMLYLHKIFQWKFEKNIRSNNDCWIVNIGTFGQVMEA-ITISYVSFIKLSDDCHLKFLYLSXXXXXXXXXXXXG--QRFVILEILQRKVKK-LRSRNYETNFFRRITINHCAVLCIANLGFVLINILHYSQAMDKIQMSKGRTWILIRCILVLISTLNRLHGFAFFLDVLL 1681 M+EQ QQYWI+I+IR+ + + CLL V L E F G N S+ +SV I +S + R N + KI N PFLISN + G + E+ N K +I F +LF ++P++LKWRPDP+E+ +I SI SG+ ++CC++SS R + + SK + ++F FLF++SI I+ + D+ ++K Q+ L+N EI + PL+ + F ++ NF ++ IG L L+ C ++ I+ N+T+ S + Y +++ I I ++ YLH+I K EK RS D +I+N GTF QV+EA + I Y K LY +++ + I Q +I EILQRKV ++SR F + +N C VL + + GF++ +++Y MD ++ K W +IR + + LNRLH F+ +D+ + Sbjct: 1 MLEQSQQYWILIVIRILQFSVLCLLSVLLFNEGF------GNSNNRLSLDFQKGLYSVAILAMLSHIGLCIFRRGNG----KWCKIINLPFLISNMLFGFIGILYTIHEMESKAAPN-------KILMIIFIFILFFYLPLYLKWRPDPNEKLTIISSILSGFSVYLCCLFSSCRYIAFSIFSESPQTSKKEFRLFSIFFLFVSSIFIFFSTHEDVNEVVKMQHTLSCLNNV---HEDEIGLDENEADPLIPKNKSEFTMPLKNNFFSIVIGIGCLIALVIVESSC--RNRYSIYLNITDGSNSKCYSYYNNTVAICTISIAFTLWYLHEILYCKVEKQPRSKIDGFILNFGTFFQVIEAMLNIHYA-----------KKLYFPMLVVANVFLIIQQLFQWALIHEILQRKVDFFMKSRRTRKIIFWKRYLNPCLVLWLISFGFLVAELINYVNTMDMLEKQKIEFWKIIRSVFIPFKILNRLHSFSVLIDIFI 461
BLAST of SMED30031196 vs. Planmine SMEST
Match: SMESG000031950.1 (SMESG000031950.1) HSP 1 Score: 110.538 bits (275), Expect = 1.671e-25 Identity = 139/511 (27.20%), Postives = 245/511 (47.95%), Query Frame = 2 Query: 251 IEQIQQYWIIILIRMFHYPIKCLLFVFLLFEKFDIDSSVGEVENICSIFHSVIIFLSISTQVFYLVRYFNSTNILRKVKIQNPPFLISNFIIGIFAVTCEYLEVVF---FRESNNFYEILYKXXXXXXXXXXXXXXXXXXKWRPDPDERFSITLSIFSGYMTFICCVY-------SSIRCVLPDKRSKP----------------KLQIFCSAFLFINSILIYNPLYGDIKTILKRQYYYENLDN-TVAQTNTEIHTNLQSGLPLLNSMLNIFRKIQINFLTVFIGCYLLSILLYASFVCFQLDKNFIFKNMTNDSQNILVFYNECQISV---YVILIIISMLYLHKIFQWKFEKNIRSNNDCWIVNIGTFGQVMEAIT--ISYVSFIKLSDDCHLKFL--YLSXXXXXXXXXXXXGQRFVILEILQRKVKKLRSRNYETNFFRRITINHCAVLCIANLGFVLINILHYSQAMDKIQMSKGRTWILIRCILVLISTLNRLHGFAFFLDVLL 1681 + QI QY+ II+++ +Y C + VF + E +D+ + ++ ++F + SI++ YL+ + S N K+ +NP +S +GIF V + ++ F + Y+ + I F L+L ++ I +WRPDPDERFS L+I SG ++FI C++ I+ +L +++ +LQIF F+ +++ILIY + K +KRQ +Y LDN ++ NT+ H L R + +L + L+S +L A F L N ++ +M +Q + +I + +++ I +S+ L I + EK IRS D +I + GT+ QV I ++SF + ++ FL Y+ I+ NI +I+Q + Q+F++ EILQR ++ + + + R ++ C LC N ++ + Y +DKI S T LI + +NRLHGF L++++ Sbjct: 1 MNQIHQYYFIIILKFLYYIFFCFITVFTVLETERLDNYINHFNHLINVFQTTFNLASIASISLYLIGFVKSGNKGYKIHFENPVLFLSIIFVGIFTVIRDSFKLYTTYKFPKCAIQYDTINDSVNILFTLILLPYLTIVSQWRPDPDERFSSLLAIGSGILSFISCLFILCQNFAKRIQVILKLEKTDECNLLNDDHHLYEDFLTQLQIFKLTFVTLSAILIYYRFKFNNKKFIKRQIFYTYLDNQNISVNNTKAHLQLPKSPN---------RCKLMEWLKSYKMPLLISGILSAIF----LSINCLY-SMPMTTQEHYHWNRMAEIIITLLHLVNIFLSIWTLIVINNFVIEKKIRSKMDSFITDYGTYAQVYIGIIHCAYFLSFNAIKNENDQSFLNKYI-IISNIFRIVQAITQQFLVNEILQRIIRPISDQEVKYKKIFRNYLSLCIFLCFMNFVLMVNIFVDYFLKIDKIG-SHTFTLNLIN-LWFPWELINRLHGFCVLLNLVV 494
BLAST of SMED30031196 vs. Planmine SMEST
Match: SMESG000027067.1 (SMESG000027067.1) HSP 1 Score: 55.4546 bits (132), Expect = 8.716e-8 Identity = 51/204 (25.00%), Postives = 95/204 (46.57%), Query Frame = 2 Query: 1091 IFKNMTNDSQNILVFYNECQISVYVILIIISMLYLHKIFQWKFEKNIRSNNDCWIVNIGTFGQVMEAITISYVSF-IKLSDDCHLKFLYLSXXXXXXXXXXXXG---QRFVILEILQRKVKKLRSRNYETNFFRRITINHCAVLCIANLGFVLINILHYSQAMDKIQMSKGRTWILIRCILVLISTLNRLHGFAFFLDVLLTDF 1690 IF ++D I + Y +I +Y++ I +L ++ +W+ E D + IGTFGQ + + +F + + DC Y++++ +QI Q ++I EI R V ++ S +++ LC+ NL F L N++ IQM + W++ ++ + +NRLH FAFF ++L ++ Sbjct: 310 IFLIYSDDKVKIHIAYQAVKIIIYLLFIGTFILLWCQLLKWRIEITPLLQIDNLFLKIGTFGQALNGCLVLISAFYVIVHKDCDRTVKYINVLWATSNFMQIFQSIFQMYLIREISNRSVTRVASVHWKP---------LALFLCVMNLSFALENLIMKPMT---IQMY-NKAWVVADMLINPLRFINRLHAFAFFANILAENY 500 The following BLAST results are available for this feature:
BLAST of SMED30031196 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30031196 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30031196 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30031196 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30031196 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30031196 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30031196 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30031196 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30031196 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30031196 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30031196 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30031196 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30031196 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30031196 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 4
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30031196 ID=SMED30031196|Name=SMED30031196|organism=Schmidtea mediterranea sexual|type=transcript|length=1789bpback to top protein sequence of SMED30031196-orf-1 >SMED30031196-orf-1 ID=SMED30031196-orf-1|Name=SMED30031196-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=483bp MIEQIQQYWIIILIRMFHYPIKCLLFVFLLFEKFDIDSSVGEVENICSIFback to top InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
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