SMED30019073
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., 2020SMED30019073 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Alignments
SMED30019073 aligns in the following genomic locations:
Homology
BLAST of SMED30019073 vs. Planmine SMEST
Match: SMESG000041235.1 (SMESG000041235.1) HSP 1 Score: 1701.41 bits (4405), Expect = 0.000e+0 Identity = 933/947 (98.52%), Postives = 941/947 (99.37%), Query Frame = 2 Query: 71 YVHSTEKSLVSKFLFPSFYEIKFFKTHFDLHEEYFNSERTXXXXXXXXXXXXXXASHCKRTLIISSKFLISHFKKYKLIYSSSILGNIMKTWKVHXXXXXXXXXXXXXXXQFKIIIMGGSISTDPDDVTHLVVYKMHEKAHGQIFKTFSDCSNVFNVHYIEFYWKKCSLLISTYDILDNLQETFAVRYFQNCKMHLIGFDEYQLGEMLLCIFDNGGSIYQLDHLHSPDCIFIVPNNSKSENVQRVINEESKDSMKNVVTEDWFWQSVENQYLVKFDDYRVLLSKTIGENTNYLSPPNDVKKSASQVLNDFKTVKLQPSGNPNQNPPFSFSDKEISVDEIKANYNLGFGFYPSQCSKEKCXXXXXXXXXXXXXXVKNIKDKLDVLNNFQAIRTHKLIENSNLLLIFNIFKQITDFFQGFYDIFQPLVINYSIDCCIGMELLPHYNKLKKYFQTYNSKFNQMSDLIDRIDSNAVKEHIQHFVDSNEISSFKYFIEIPKRMLTLIQMQFDDIIKSTSKFHPDIVFFIEISQKNRHVTKLIETLEDKLIEGRNQIIVMKCIGNPAIVQIGNRYRTVVDCMHYCDDGLKCAKSLFLFDNTIVMCNFKASAPGKLFDRVIAHLKEQINSGNNLTRCPSIQSIYRNSPFIEMNIKRKXXXXXXXXXXXXXXRKLEGNACSKFHKLFTGLSKLNWKENPENIYXXXXXXXXXXXXXXXXHRGNFDVQSQMFFTINYIDKQSNLLKNMKLFLVPRVVKHPFKYNKINVALPTDFDWEYNDNKGIKWDEFIVEEKRNFCAIIAQHYEMEFIEDSLLSNSVSSVAFENDWLVSDKYFRTPVKLDKTTTRNLSPSNNSFMGSFKKSPKSMSLKKTITENXXXXXXXXXXXXNTLPSSSSQNYIFEDESQNKETKETLTNHKYPENSPVKSLEETEEFSSLNQSELDRNSPLFSKRILHF 2911 YVHSTEKSLVSKFLFPSFYEIKFFKTHFDLHEEYFNSERT IFCIDDQFIIDEIASHCKRTLIISSKFLISHFKKYKLIYS+SILGNIMKTWKVHLIGF+DEDDDLIIDLQFKIIIMGGS+STDPDDVTHLVVYKMHEKAHGQIFKTFSDCSNVFNVHYIEFYWKKCSLLISTYDILDNLQETFAVRYFQNCKMHLIGFDEYQLGEMLLCIFDNGGSIYQLDHLHSPDCIFIVPNNSKSENVQRVINEESKDSMKNVVTEDWFWQSVENQYLVKFDDYRVLLSKTIGENTNYLSPPNDVKKSASQVLNDFKTVKLQ SGNPNQNPPFSFSDKEISVDEIKANYNLGFGFYPSQCSKEKCEEYEYRRYNLLLNLVKNIKDKLDVLNNFQAIRTHKLIENSNLLLIFNIFKQITDFFQGFYDIFQPLVINYSIDCCIGMELLPHYN+LKKYFQTYNSKFNQMSDLIDRIDSNAVKEHIQHFVDSNEISSFKYFIEIPKRMLTLIQMQFDDIIKSTSKFHPDIVFFIEISQKNRHVTKLIETLEDKLIEGRNQIIVMKCIGNPAIVQIGNRYRTVVDCMHYCDDGLKCAKSLFLFDNTIVMCNFKASAPGKLFDR+IAHLKEQINSGNNLTRCPSIQSIYRNSPFIEMNIKRK SISSVTTVNSISVRKLEGNACSKFHKLFTGLSKLNWKENPENIYSETEILEKSSLISLISHRGNFDVQSQMFFTINYIDKQSNLLKNMKLFLVPRVVKHPFKYNKINVALPTDFDWEYNDNKGIKWDEFIVEEKRNFCAIIAQHYEMEFIEDSLLSNSVSSVAFENDWLVSDKYFRTPVKLDKTTTRNLSPSNNSFMGSFKKSPKSMSLKKTITENFRRFTRFKKRSKNTLPSSSSQNYIFEDESQNKETK+TLTNHKYPENSPVKSLEETEEFSSLNQS+LDRNSPLFSK + F Sbjct: 4 YVHSTEKSLVSKFLFPSFYEIKFFKTHFDLHEEYFNSERTLIFCIDDQFIIDEIASHCKRTLIISSKFLISHFKKYKLIYSNSILGNIMKTWKVHLIGFEDEDDDLIIDLQFKIIIMGGSMSTDPDDVTHLVVYKMHEKAHGQIFKTFSDCSNVFNVHYIEFYWKKCSLLISTYDILDNLQETFAVRYFQNCKMHLIGFDEYQLGEMLLCIFDNGGSIYQLDHLHSPDCIFIVPNNSKSENVQRVINEESKDSMKNVVTEDWFWQSVENQYLVKFDDYRVLLSKTIGENTNYLSPPNDVKKSASQVLNDFKTVKLQTSGNPNQNPPFSFSDKEISVDEIKANYNLGFGFYPSQCSKEKCEEYEYRRYNLLLNLVKNIKDKLDVLNNFQAIRTHKLIENSNLLLIFNIFKQITDFFQGFYDIFQPLVINYSIDCCIGMELLPHYNQLKKYFQTYNSKFNQMSDLIDRIDSNAVKEHIQHFVDSNEISSFKYFIEIPKRMLTLIQMQFDDIIKSTSKFHPDIVFFIEISQKNRHVTKLIETLEDKLIEGRNQIIVMKCIGNPAIVQIGNRYRTVVDCMHYCDDGLKCAKSLFLFDNTIVMCNFKASAPGKLFDRLIAHLKEQINSGNNLTRCPSIQSIYRNSPFIEMNIKRKKSISSVTTVNSISVRKLEGNACSKFHKLFTGLSKLNWKENPENIYSETEILEKSSLISLISHRGNFDVQSQMFFTINYIDKQSNLLKNMKLFLVPRVVKHPFKYNKINVALPTDFDWEYNDNKGIKWDEFIVEEKRNFCAIIAQHYEMEFIEDSLLSNSVSSVAFENDWLVSDKYFRTPVKLDKTTTRNLSPSNNSFMGSFKKSPKSMSLKKTITENFRRFTRFKKRSKNTLPSSSSQNYIFEDESQNKETKKTLTNHKYPENSPVKSLEETEEFSSLNQSQLDRNSPLFSKENIAF 950
BLAST of SMED30019073 vs. Planmine SMEST
Match: SMESG000041220.1 (SMESG000041220.1) HSP 1 Score: 166.007 bits (419), Expect = 7.227e-42 Identity = 113/350 (32.29%), Postives = 192/350 (54.86%), Query Frame = 2 Query: 1472 DSNAVKEHIQHFVDSNEISSFKYFIEIPKRMLTLIQMQFDDIIKSTSKFHPDIVFFIEISQKNRHVTKLIETLEDKLIEGRNQIIVMKCIGNPAIVQIGNRYRTVVDCMHYCDDGLKCAKSLFLFDNTIVMCNF-KASAPGKLF--DRVIAHLKEQINSGNNLTRCPSIQSIYRNSPFIEMN----IKRKXXXXXXXXXXXXXXRKLEGNACSKFHKLFTGLSKLNWKENPENIYXXXXXXXXXXXXXXXXHRGNFDVQSQMFFTINYIDKQSNLLKNMKLFLVPRVVKHPFKYNKINVALPTDFDWEYNDNKGIKWDEFIVEEKRNFCAIIAQHYEMEFIEDSLLSNSV 2500 D+ +KE + + +SS K FIEIP+RMLT I++Q +I++ T HPDI E+ + V+ L+ + ++QI + K ++ N Y TVVDCM++ DG K L + +N++V+ +F P +L+ + + +NS N+++ +NS ++ N ++R + S+ + +++EG CSK+HKLFTGLS++NWK ++ +LEKS+++S+ S+ + + QMFF I+Y D +S ++ LVPR VK+ Y+K+NV P +F+W + K I W E + EKRNFC +A H+++E+ E L+ S+ Sbjct: 300 DNETIKEKFEPLKSKHNVSSIKSFIEIPQRMLTQIELQLKEIVEKTENEHPDIKNLKEMLKITHDVSTLVNQVAQYHAVHKSQITINKYFLKADFLRHDNPYSTVVDCMYFSADGSTLPKMLLVLENSVVISDFVNKIPPNQLYKKVKKNLKKVDTLNSNNSIS--------IKNSLVVDENENSTVQR--TSSNCSASTLNKRKRIEGILCSKYHKLFTGLSEVNWKVENSEMFCTPLLLEKSNIVSVRSNASQWRLYDQMFFAIDYRDPKSQNIEQYTFQLVPRFVKNIQVYDKLNVGFPFEFEWSCPE-KDISWGELVSSEKRNFCYNLACHFDVEYSETYDLTKSL 638 HSP 2 Score: 67.781 bits (164), Expect = 3.252e-11 Identity = 50/176 (28.41%), Postives = 86/176 (48.86%), Query Frame = 2 Query: 401 QFKIIIMGGSISTDPDD-----VTHLVVYKMHEKAHGQI--FKTFSDCSNVFNVHYIEFYWKKCSLLISTYDILDNLQETFAVRYFQNCKMHLIGFDEYQLGEMLLCIFDNGGSIYQL-DHLHSPDCIFIVPNNSKSENVQRVINEESKDSMKNVVTEDWFWQSVENQYLVKFDDY 904 QFK++ MGG + D D V ++ Y+ + K++ S+ FN+ IE I+ ++ L + +F + F NC++ L+GF+ + + L IF+N G+ + D + + IFI +SEN + E S+ + V EDW+W SV +LV F++Y Sbjct: 108 QFKVLAMGGIYAVDESDKIFESVNIVIPYRFTRNVQLILNKLKSYRIYSH-FNIDSIE---------INEFEDLHDKSNSFQMGLFNNCRIRLVGFESDKQESISLSIFENNGTFLSISDKNYVEEDIFIFAQGFQSENYAIHLKEISETINLSFVNEDWYWDSVREDFLVPFENY 273
BLAST of SMED30019073 vs. Planmine SMEST
Match: SMESG000055277.1 (SMESG000055277.1) HSP 1 Score: 117.472 bits (293), Expect = 1.328e-26 Identity = 107/427 (25.06%), Postives = 198/427 (46.37%), Query Frame = 2 Query: 1220 LNNFQAIRTHKLIENSNLLLIFNIFKQITDFFQGFYDIFQPLVIN-YSIDCCIGMELLPHYNKLKKYFQTYNSKFNQMSDLIDRID--SNAVKEHIQHFVDSNEISSFKYFIEIPKRMLTLIQMQFDDIIKSTSKFHPDIVFFIEISQKNRHVTKLIETLEDKLIEGRNQIIVMKCIGNPAIVQIGNRYRTVVDCMHYCDDGLKCAKSLFLFDNTIVMCNFK---------ASAPGKL---FDRVIAHLKEQINSGNNLTRCPSIQSIYRNSPFIEMNIKRKXXXXXXXXXXXXXXRKLEGNACSKFHKLFTGLSKLNWKENPENIYXXXXXXXXXXXXXXXXHRGNFDVQ-SQMFFTINYIDKQSNLLKNMKLFLVPRVVKHPFKYNKINVALPTDFDWEYNDNKGIKWDEFIVEEKRNFCAIIAQ 2452 +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 ++ 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: 351 INKFQNLRSNSVL--STVKELDDIFKAFQKIFVFFSDLHKQLIIEEFPEDYCYGIEFLEIFGLVDEYYESYKQLFISLIDRVNFINNYSNSVKTLLKEFCKKNSHPDILSFFKLPIRSWLVINTIITEILTNTRCYHPDIGAWCTVQEKISNLLNYFNTIENERINGVKQNLVAKCLSSIVELNENNQFWTCVDCVLFDETSKLIPLTIFIMKETIMFCAFSDFKKKLCKYEKIKGNLEKSIQRIVRINKDFVPNKNNQEKSP---KKFRSSTFNPEEFVKEFKTIPF------------KNQLSKFNKIFNGLANINWNFVSNKKYNEYFEIKKSQFTKISYECLDNDILISPLSFDLSYINSNS-MNSTIRLQLVPTIVNSIKDYENIKIDINDEIEWTPKESKDMSWIEFILAEKNNFCYFFDQ 759 HSP 2 Score: 59.6918 bits (143), Expect = 1.090e-8 Identity = 49/184 (26.63%), Postives = 88/184 (47.83%), Query Frame = 2 Query: 401 QFKIIIMGGSISTDPDDVTHLVV-----YKMHEKAHGQIFKTFSDCSN-VFNVHYIEFYWKKCSLLISTYDILDNLQETFAVRYFQNCKMHLIGFDEYQLGEMLLCIFDNGGSIYQLDHL----HSPDCIFIVPNNSKSENVQRVINEE---SKDSMKNVVTEDWFWQSVENQYLVKFDDYRVL 913 + 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: 112 KVKALLMGAKVSDYITDSTSRVIISKMSYQNQEKLH-------SNCNQRTFSSNLIDYFWKNHSKNPKTNAGIIN---SFRAKLFMNCRFVIVGLVRESFNSVMKAIVKHGGSVYQLENVQIATHVIACREIDIIN---------LNERKFLSENEFKNVVSKDWIFDSVKRGFLMSMINYQII 276 The following BLAST results are available for this feature:
BLAST of SMED30019073 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30019073 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30019073 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30019073 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30019073 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30019073 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30019073 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30019073 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30019073 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30019073 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30019073 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30019073 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30019073 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30019073 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 >SMED30019073 ID=SMED30019073|Name=SMED30019073|organism=Schmidtea mediterranea sexual|type=transcript|length=2984bpback to top protein sequence of SMED30019073-orf-1 >SMED30019073-orf-1 ID=SMED30019073-orf-1|Name=SMED30019073-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=968bp MTIYVHSTEKSLVSKFLFPSFYEIKFFKTHFDLHEEYFNSERTFIFCIDDback 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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