SMED30019889
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., 2020SMED30019889 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 6
Alignments
SMED30019889 aligns in the following genomic locations:
Homology
BLAST of SMED30019889 vs. Ensembl Yeast
Match: REV1 (Deoxycytidyl transferase; involved in repair of abasic sites and adducted guanines in damaged DNA by translesion synthesis (TLS); forms a complex with the subunits of DNA polymerase zeta, Rev3p and Rev7p; relocalizes from nucleus to cytoplasm upon DNA replication stress [Source:SGD;Acc:S000005873]) HSP 1 Score: 50.8322 bits (120), Expect = 8.087e-7 Identity = 45/165 (27.27%), Postives = 71/165 (43.03%), Query Frame = 2 Query: 416 TDSTSRVIISKMSYQNQEKLHSNCNQRTFSSNLIDYFWKNHSKNPKTNAGIINSFRAKLFMNCRFVIVGLVRESFNSVMKAIVKHGGS-VYQLENVQIATHVIACREIDIINLNERKFLSENEFKN--VVSKDWIFDSVKRGFLMSMINYQIIR--DRQHINFDD 895 +DS + Y + H + +T ++ +K+ I+S +K+F NC I G + + + IV HGG ++ L + + TH++A NL +K + EF N VVS DWI DSVK L+ NY + D Q D+ Sbjct: 117 SDSNGDDVKKNTVYTREAYFHEKAHGQTLQDQILKDQYKDQ----------ISSQSSKIFKNCVIYINGYTKPGRLQLHEMIVLHGGKFLHYLSSKKTVTHIVAS------NLPLKKRI---EFANYKVVSPDWIVDSVKEARLLPWQNYSLTSKLDEQQKKLDN 262
BLAST of SMED30019889 vs. Planmine SMEST
Match: SMESG000055277.1 (SMESG000055277.1) HSP 1 Score: 1603.96 bits (4152), Expect = 0.000e+0 Identity = 829/829 (100.00%), Postives = 829/829 (100.00%), Query Frame = 2 Query: 38 MKIFIYKPANAIILKNCKIKSPIVVYFSKLQDINNLIEISKVSNKYIFCVEDEKDTIFLYNYNPMAIIISPLELYNLWKENKAAFSSTTEKVLKNEMLYFCGFNLIELCRMKVKALLMGAKVSDYITDSTSRVIISKMSYQNQEKLHSNCNQRTFSSNLIDYFWKNHSKNPKTNAGIINSFRAKLFMNCRFVIVGLVRESFNSVMKAIVKHGGSVYQLENVQIATHVIACREIDIINLNERKFLSENEFKNVVSKDWIFDSVKRGFLMSMINYQIIRDRQHINFDDLEYEENQFGKNITECPSIKTLLSLPSNEYITPKTTDIITVNDSSNRLIIISNLRTFLWNNIVSEINKFQNLRSNSVLSTVKELDDIFKAFQKIFVFFSDLHKQLIIEEFPEDYCYGIEFLEIFGLVDEYYESYKQLFISLIDRVNFINNYSNSVKTLLKEFCKKNSHPDILSFFKLPIRSWLVXXXXXXXXXXXXRCYHPDIGAWCTVQEKISNLLNYFNTIENERINGVKQNLVAKCLSSIVELNENNQFWTCVDCVLFDETSKLIPLTIFIMKETIMFCAFSDFKKKLCKYEKIKGNLEKSIQRIVRINKDFVPNKNNQEKSPKKFRSSTFNPEEFVKEFKTIPFKNQLSKFNKIFNGLANINWNFVSNKKYNEYFEIKKSQFTKISYECLDNDILISPLSFDLSYINSNSMNSTIRLQLVPTIVNSXXXXXXXXXXXXXXXXWTPKESKDMSWIEFILAEKNNFCYFFDQMITASNQRYFDAFQESNSKGLTQLSKSSSRAYSTFFSKPKESRTRSPIIKKPTIFSNLSKRIKKIRKFLG 2524 MKIFIYKPANAIILKNCKIKSPIVVYFSKLQDINNLIEISKVSNKYIFCVEDEKDTIFLYNYNPMAIIISPLELYNLWKENKAAFSSTTEKVLKNEMLYFCGFNLIELCRMKVKALLMGAKVSDYITDSTSRVIISKMSYQNQEKLHSNCNQRTFSSNLIDYFWKNHSKNPKTNAGIINSFRAKLFMNCRFVIVGLVRESFNSVMKAIVKHGGSVYQLENVQIATHVIACREIDIINLNERKFLSENEFKNVVSKDWIFDSVKRGFLMSMINYQIIRDRQHINFDDLEYEENQFGKNITECPSIKTLLSLPSNEYITPKTTDIITVNDSSNRLIIISNLRTFLWNNIVSEINKFQNLRSNSVLSTVKELDDIFKAFQKIFVFFSDLHKQLIIEEFPEDYCYGIEFLEIFGLVDEYYESYKQLFISLIDRVNFINNYSNSVKTLLKEFCKKNSHPDILSFFKLPIRSWLVINTIITEILTNTRCYHPDIGAWCTVQEKISNLLNYFNTIENERINGVKQNLVAKCLSSIVELNENNQFWTCVDCVLFDETSKLIPLTIFIMKETIMFCAFSDFKKKLCKYEKIKGNLEKSIQRIVRINKDFVPNKNNQEKSPKKFRSSTFNPEEFVKEFKTIPFKNQLSKFNKIFNGLANINWNFVSNKKYNEYFEIKKSQFTKISYECLDNDILISPLSFDLSYINSNSMNSTIRLQLVPTIVNSIKDYENIKIDINDEIEWTPKESKDMSWIEFILAEKNNFCYFFDQMITASNQRYFDAFQESNSKGLTQLSKSSSRAYSTFFSKPKESRTRSPIIKKPTIFSNLSKRIKKIRKFLG Sbjct: 1 MKIFIYKPANAIILKNCKIKSPIVVYFSKLQDINNLIEISKVSNKYIFCVEDEKDTIFLYNYNPMAIIISPLELYNLWKENKAAFSSTTEKVLKNEMLYFCGFNLIELCRMKVKALLMGAKVSDYITDSTSRVIISKMSYQNQEKLHSNCNQRTFSSNLIDYFWKNHSKNPKTNAGIINSFRAKLFMNCRFVIVGLVRESFNSVMKAIVKHGGSVYQLENVQIATHVIACREIDIINLNERKFLSENEFKNVVSKDWIFDSVKRGFLMSMINYQIIRDRQHINFDDLEYEENQFGKNITECPSIKTLLSLPSNEYITPKTTDIITVNDSSNRLIIISNLRTFLWNNIVSEINKFQNLRSNSVLSTVKELDDIFKAFQKIFVFFSDLHKQLIIEEFPEDYCYGIEFLEIFGLVDEYYESYKQLFISLIDRVNFINNYSNSVKTLLKEFCKKNSHPDILSFFKLPIRSWLVINTIITEILTNTRCYHPDIGAWCTVQEKISNLLNYFNTIENERINGVKQNLVAKCLSSIVELNENNQFWTCVDCVLFDETSKLIPLTIFIMKETIMFCAFSDFKKKLCKYEKIKGNLEKSIQRIVRINKDFVPNKNNQEKSPKKFRSSTFNPEEFVKEFKTIPFKNQLSKFNKIFNGLANINWNFVSNKKYNEYFEIKKSQFTKISYECLDNDILISPLSFDLSYINSNSMNSTIRLQLVPTIVNSIKDYENIKIDINDEIEWTPKESKDMSWIEFILAEKNNFCYFFDQMITASNQRYFDAFQESNSKGLTQLSKSSSRAYSTFFSKPKESRTRSPIIKKPTIFSNLSKRIKKIRKFLG 829
BLAST of SMED30019889 vs. Planmine SMEST
Match: SMESG000041235.1 (SMESG000041235.1) HSP 1 Score: 110.923 bits (276), Expect = 1.299e-24 Identity = 111/428 (25.93%), Postives = 202/428 (47.20%), Query Frame = 2 Query: 1088 INKFQNLRSNSVL--STVKELDDIFKAFQKIFVFFSDLHKQLIIEEFPEDYCYGIEFLEIFGLVDEYYESYKQLFISLIDRVNFINNYSNSVKTLLKEFCKKNSHPDILSFFKLPIRSWLVXXXXXXXXXXXXRCYHPDIGAWCTVQEKISNLLNYFNTIENERINGVKQNLVAKCLSSIVELNENNQFWTCVDCVLFDETSKLIPLTIFIMKETIMFCAFSDFKKKLCKYEKIKGNLEKSIQRIVRINKDFVPNKNNQEKSP---KKFRSSTFNPEEFVKEFKTIPF-------------KNQLSKFNKIFNGLANINWNFVSNKKYNEYFEIKKSQFTKISYECLDNDILISPLSFDLSYINSNS-MNSTIRLQLVPTIVNSXXXXXXXXXXXXXXXXWTPKESKDMSWIEFILAEKNNFCYFFDQ 2314 +N FQ +R++ ++ S + + +IFK F F D+ + L+I + D C G+E L + + +Y+++Y F + D ++ I+ SN+VK ++ F N F ++P R +I +I+ +T +HPDI + + +K ++ T+E++ I G Q +V KC+ + + N++ T VDC+ + + ++F+ TI+ C F G L R++ K+ + + NN + P +R+S F E +K K+I N SKF+K+F GL+ +NW Y+E ++KS + + D+ S + F ++YI+ S + ++L LVP +V Y I + + + +W ++K + W EFI+ EK NFC Q Sbjct: 387 LNNFQAIRTHKLIENSNLLLIFNIFKQITDFFQGFYDIFQPLVIN-YSIDCCIGMELLPHYNQLKKYFQTYNSKFNQMSDLIDRID--SNAVKEHIQHFVDSNEISSFKYFIEIPKRMLTLIQMQFDDIIKSTSKFHPDIVFFIEISQKNRHVTKLIETLEDKLIEGRNQIIVMKCIGNPAIVQIGNRYRTVVDCMHYCDDGLKCAKSLFLFDNTIVMCNFK---------ASAPGKL---FDRLIAHLKEQINSGNNLTRCPSIQSIYRNSPF-IEMNIKRKKSISSVTTVNSISVRKLEGNACSKFHKLFTGLSKLNWKENPENIYSETEILEKSSLISLISHRGNFDVQ-SQMFFTINYIDKQSNLLKNMKLFLVPRVVKHPFKYNKINVALPTDFDWEYNDNKGIKWDEFIVEEKRNFCAIIAQ 797 HSP 2 Score: 65.0846 bits (157), Expect = 2.328e-10 Identity = 64/253 (25.30%), Postives = 120/253 (47.43%), Query Frame = 2 Query: 176 IFCVEDEKDTIFLYNYNPMAIIISPLELYNLWKENKAAFS-STTEKVLKNEMLYFCGFNLIELCRM---KVKALLMGAKVSDYITDSTSRVIISKMSYQNQEKLH-------SNCNQRTFSSNLIDYFWKNHSKNPKTNAGIIN---SFRAKLFMNCRFVIVGLVRESFNSVMKAIVKHGGSVYQLENVQIATHVIACREIDIIN---------LNERKFLSENEFKNVVSKDWIFDSVKRGFLMSMINYQII 865 IFC++D+ + ++ +IIS L + +K+ K +S S ++K ++ GF + + + K ++MG +S D T V+ Y+ EK H S+C+ F+ + I+++WK S T + N +F + F NC+ ++G ++ I +GGS+YQL+++ H C I N +NE S++ KNVV++DW + SV+ +L+ +Y+++ Sbjct: 45 IFCIDDQFIIDEIASHCKRTLIISSKFLISHFKKYKLIYSNSILGNIMKTWKVHLIGFEDEDDDLIIDLQFKIIIMGGSMSTDPDDVTHLVV-----YKMHEKAHGQIFKTFSDCSN-VFNVHYIEFYWKKCSLLISTYDILDNLQETFAVRYFQNCKMHLIGFDEYQLGEMLLCIFDNGGSIYQLDHL----HSPDCIFIVPNNSKSENVQRVINEE---SKDSMKNVVTEDWFWQSVENQYLVKFDDYRVL 284
BLAST of SMED30019889 vs. Planmine SMEST
Match: SMESG000041220.1 (SMESG000041220.1) HSP 1 Score: 52.373 bits (124), Expect = 1.486e-6 Identity = 98/418 (23.44%), Postives = 177/418 (42.34%), Query Frame = 2 Query: 1352 SVKTLLKEFCKKNSHPDILSFFKLPIRSWLVXXXXXXXXXXXXRCYHPDIG---AWCTVQEKISNLLNY---FNTIENERINGVKQNLVAKCLSSIVELNENNQFWTCVDCVLFDETSKLIPLTIFIMKETIMFCAFSDFKKKL-------------CKYEKIKGNLEKSIQRIVRINKDFVPNKNNQ-EKSPKKFRSSTFNPEEFVKEFKTIPFKNQLSKFNKIFNGLANINWNFVSNKKYNEYFEIKKSQFTKISYECLDNDILISPLSFDLSYINSNSMN-STIRLQLVPTIVNSXXXXXXXXXXXXXXXXWTPKESKDMSWIEFILAEKNNFCY----FFD----QMITASNQRYFDAFQESNSKGLTQLSKSSS---RAYSTFFS------KPKESRTRSPIIKKPTIFSNLS 2491 ++K + K++ I SF ++P R I + EI+ T HPDI + +S L+N ++ + +I K L A L +N + T VDC+ F +P + +++ +++ SDF K+ K + + N SI+ + +++ N+N+ +++ +ST N + ++ SK++K+F GL+ +NW +++ + ++KS + L + F + Y + S N QLVP V +I+ Y+ + + E EW+ E KD+SW E + +EK NFCY FD + + Y ++ ES T+ S SS R+ FF KP + + ++P I S +S Sbjct: 303 TIKEKFEPLKSKHNVSSIKSFIEIPQRMLTQIELQLKEIVEKTENEHPDIKNLKEMLKITHDVSTLVNQVAQYHAVHKSQITINKYFLKADFLR------HDNPYSTVVDCMYFSADGSTLPKMLLVLENSVVI---SDFVNKIPPNQLYKKVKKNLKKVDTLNSNNSISIKNSLVVDE----NENSTVQRTSSNCSASTLNKRKRIEGI-------LCSKYHKLFTGLSEVNWKVENSEMFCTPLLLEKSNIVSVRSNA-SQWRLYDQMFFAIDYRDPKSQNIEQYTFQLVPRFVKNIQVYDKLNVGFPFEFEWSCPE-KDISWGELVSSEKRNFCYNLACHFDVEYSETYDLTKSLYLNSSNESMESVATKFSAYSSTPKRSVKKFFRRLTTFVKPVKEKHKTPTPSNGNIQSRIS 698 The following BLAST results are available for this feature:
BLAST of SMED30019889 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30019889 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30019889 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30019889 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30019889 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30019889 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30019889 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30019889 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30019889 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30019889 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30019889 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 1
BLAST of SMED30019889 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30019889 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30019889 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 3
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30019889 ID=SMED30019889|Name=SMED30019889|organism=Schmidtea mediterranea sexual|type=transcript|length=2543bpback to top protein sequence of SMED30019889-orf-1 >SMED30019889-orf-1 ID=SMED30019889-orf-1|Name=SMED30019889-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=830bp MKIFIYKPANAIILKNCKIKSPIVVYFSKLQDINNLIEISKVSNKYIFCVback 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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