SMED30016933
Overview
Neoblast Clusters
Zeng et. al., 2018▻ Overview▻ 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 AppSub-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., 2020SMED30016933 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 4
Alignments
SMED30016933 aligns in the following genomic locations:
Homology
BLAST of SMED30016933 vs. Planmine SMEST
Match: SMESG000065836.1 (SMESG000065836.1) HSP 1 Score: 848.195 bits (2190), Expect = 0.000e+0 Identity = 478/483 (98.96%), Postives = 480/483 (99.38%), Query Frame = 1 Query: 46 MDISERNYRIQKLRHLKEIYIYNLLVFFISIGLVHSVSWMAMKVDSDIHHLRRFSNTASAFGSLPFSINVFLILXXXXXXXXXXXXXXXSTLESNLTFYIILIPLMIVEFVYGVLLIGSVFSTIECSPKFTIVYCLMCLTNSFCYMVFLIDTNKSIEFGEDWKLNFTNFSTLLFAISNIFMFTFLQFHLDQSRVFMSIMGKSTDLCLNQNITSGDTILGMVNRLFLQMFAVMFKVFLISGIASITFFYQPLLRYYKHLQRFKNNPPSILTLDQSQWPSKVISVFLMLGITSIVTLYIFSPKQWYNIFLATANILSCLMEVLMVFVLIDWPDKGESFKHIEVLLFLGLFGHLTKEISQLQYFIYNARESYRTIKIIKSLSEILNNMLMNIFLSSLLRKRWHNNRKLFWIIVSVLVLIQNFGYVFDELYGKKKEFNGDFKEELSYTILNSIGLGXXXXXXXXXXXXXXXXXXXXXXPATFSKLVL 1494 MDISERNYRIQKLRHLKEIYIYNLLVFFISIGLVHSVSWMAMKVDSDIHHLRRFSNTASAFGSLPFSINVFLILYNFYNNYKFRNFFFRSTLESNLTFYIILIPLMIVEFVYGVLLIGSVFSTIECSPKFTIVYCLMCLTNSFCYMVFLIDTNKSIEFGEDWKLNFTNFSTLLFAISNIFMFTFLQFHLDQSR+FMSIMGKSTDLCLNQNITSGDTILGMVNRLFLQMFAVMFKVFLISGIASITFFYQPLLRYYKHLQRFKNNPPSILTLDQSQWPSKVISVFLM GITSIVTLYIFSPKQ YNIFLATANILSCLMEVLMVFVLIDWPDKGE FKHIEVLLFLGLFGHLTKEISQLQYFIYNARESY+TIKIIKSLSEILNNMLMNIFLSSLLRKRWHNNRKLFWIIVSVLVLIQNFGYVFDELYGKKKEFNGDFKEELSYTILNSIGLGFFFLYRYIIFIILISFLLFLSFPATFSKLVL Sbjct: 1 MDISERNYRIQKLRHLKEIYIYNLLVFFISIGLVHSVSWMAMKVDSDIHHLRRFSNTASAFGSLPFSINVFLILYNFYNNYKFRNFFFRSTLESNLTFYIILIPLMIVEFVYGVLLIGSVFSTIECSPKFTIVYCLMCLTNSFCYMVFLIDTNKSIEFGEDWKLNFTNFSTLLFAISNIFMFTFLQFHLDQSRIFMSIMGKSTDLCLNQNITSGDTILGMVNRLFLQMFAVMFKVFLISGIASITFFYQPLLRYYKHLQRFKNNPPSILTLDQSQWPSKVISVFLMFGITSIVTLYIFSPKQSYNIFLATANILSCLMEVLMVFVLIDWPDKGECFKHIEVLLFLGLFGHLTKEISQLQYFIYNARESYKTIKIIKSLSEILNNMLMNIFLSSLLRKRWHNNRKLFWIIVSVLVLIQNFGYVFDELYGKKKEFNGDFKEELSYTILNSIGLGFFFLYRYIIFIILISFLLFLSFPATFSKLVL 483
BLAST of SMED30016933 vs. Planmine SMEST
Match: SMESG000009259.1 (SMESG000009259.1) HSP 1 Score: 132.494 bits (332), Expect = 2.452e-33 Identity = 129/439 (29.38%), Postives = 218/439 (49.66%), Query Frame = 1 Query: 76 QKLRHLKEIYIYNLLVFFISIGLVHSVSWMAMKVDSDIHHLRRFSNTASAFGSLPFSINVFLILXXXXXXXXXXXXXXXSTLESNLTFYIILIPLMIVEFVYGVLLIGSVFSTIECSPKFTIVYCLMCLTNSFCYMVFLIDTNKSIEFGEDWKLNFTNFSTLLFAISNIFMFTFLQFHLDQSRVFMSIMGKSTDLCLNQNITSGDT--ILGMVNRLFLQMF----AVMFKVFLISGIASITFFYQPLLRYYKHLQRF-KNNPPSILTLDQSQWPSKVISVFLMLGITSIVTLYI------FSPKQWYNIFLATANILSCLMEVLMVFVLIDWPDKGESFKHIEVLLFLGLFGHLTKEISQLQYFIYNARESYRTIKIIKS---LSEILNNMLMNIFLSSLLRKRWHNNRKLFW---IIVSVLVLIQNFGYVFDELYGKK 1335 Q RHL EI YNL V+ + IG++ + ++ ++ + RFSNT S FG IN+F + YN+Y N + RNFF L+S L FY+I +P +I+ +Y + + +F + C + + Y + C + ++ L + + + GE W + + NF+TLL N+ +F QF L+Q +SI D ++ N S D+ G R FL F +M K ++ G +S FF PL+R Y++L++F K + PSI + S++ SKV+++ ++ ++ +++I FS K Y I + + M + + L+ WP G+S +EVLL++G+ G K + + F++ I +I L I + L+ F+ L+ KRW FW I+ VL+ I N F + Y + Sbjct: 6 QGKRHLLEICSYNLGVYTLVIGILFMYGYNSVFLEQPPLYEPRFSNTVSIFGVTSHIINIFFLFYNWYINIRNRNFFSPIKLDSVLIFYLICVPFLILAILYSIFVTMKLFFSPWCMARADVAYSVSCNILALLILIHLAELSFYRDTGEKWIITYVNFTTLLITFINVMVFVIFQFSLEQINTLISIY----DFNISYNPCSMDSRNFTGSFMRNFLFFFKDWEKLMLKGIIVFGTSSSVFFIGPLMRQYRNLKKFNKASIPSI-AVRNSRF-SKVLAIPFIIIALAVFSVFIFINITQFSTKN-YEIMMVIQHAFGSCMIIWQIKTLLHWPSNGKSISSLEVLLYVGVCGQSLKNTALFEQFLHQIVFYSDYIYLINDFHFLLSIFYSFLITSFICLLIGKRWEVTNGNFWFITILCLVLISINNAISSFQDFYKRN 437
BLAST of SMED30016933 vs. Planmine SMEST
Match: SMESG000062817.1 (SMESG000062817.1) HSP 1 Score: 80.4925 bits (197), Expect = 7.742e-16 Identity = 101/418 (24.16%), Postives = 187/418 (44.74%), Query Frame = 1 Query: 76 QKLRHLKEIYIYNLLVFFISIGLVHSVSWMAMKVDSDIHHLRRFSNTASAFGSLPFSINV-FLILXXXXXXXXXXXXXXXSTLESNLTFYIILIPLMIVEFVYGVL-LIGSVFSTIECSPKFTIVYCLMCLTNSFCYMVFLIDTNKSIEFGEDWKLNFTNFSTLLFAISNIFMFTFLQFHLDQSRVFMSIMGKSTD--LCLNQNITSGDTILGMVNRLFLQMFAVMFKVFLISGIASITFFYQPLLRYYKHLQRFKNNPPSILTLDQSQWPSKVISVFLMLGITSIVTLYIFSPKQWYNIFLATAN--ILSCLMEVLMVFVLIDWPDKGESFKHIEVLLFLGLFGHLTKEISQLQYF---IYNARESYRTIKIIKSLSEILNNMLMNIFLSSLLRKRWHNNRKLFWIIVSVLVLIQNF 1302 Q+ R+ KE+ Y+ S L SW+A+ + I N + SL +S+NV FL L + + +F+ + +FY I IPL I + +L L+ SV++ ++C I+Y + MVF+I N ++W++NF +L I N+F ++ + +F +CL N+T G+ +NR ++ + V +I G+ S+ F+ +P LR L+ +K + L + S + LG+ +V+ +IF I L + +L C M L P K +E+L +LG G + IS L+ + + +S ++I+ ++ +N+M NIF+ L+ K+W+ + + + ++ +L++NF Sbjct: 15 QENRNFKEVVFYSFGCVLFSTALTQVSSWIALYLSRTIKPSESSLNFITGSESLLYSLNVTFLCLSLYKSYEYRNHFYSILNEQGKPSFYCIYIPLTIAVVLKCILNLMISVYN-LKCYSIGVIIYSVSLFLLVVGNMVFVIMVNMYQVNADEWEINFFLLLAILPTIINMFCVCYMNYVFSNILLFYKSFSLKNQGYVCLFVNLTDGNYFKEKLNRFYISTLEITPNVLMIYGLLSVIFYLKPFLRNLALLEIYK-KKTDLNNLTEISGKSWRFLICFSLGLILLVSNFIFRLDDLSIIILYILSIFVLICQM-----INLKKVPSKPRRLVLLEILFYLGYCGIVLLRISSLRVYYSLVIALNDSKYIMQIVHTILSFVNSMFTNIFIVLLISKKWNYILGVNFKVANLFLLVENF 425
BLAST of SMED30016933 vs. Planmine SMEST
Match: SMESG000051898.1 (SMESG000051898.1) HSP 1 Score: 65.4698 bits (158), Expect = 4.791e-11 Identity = 115/432 (26.62%), Postives = 199/432 (46.06%), Query Frame = 1 Query: 133 SIGLVHSVSWMAMKVDSDIHHLRRFSNTASAFGSLPFSINVFLILXXXXXXXXXXXXXXXSTLESNLTFYIILIPLMIVEFVYGVLLIGSVFS--TIECSPKFTIVYCLMCLTNSFCYMVFLIDTNKSIEFGEDWKLNFTNFSTLLFAISNIFMFTFLQFHLDQSRVFMSIMGKSTDLCLNQN-ITSGDTILGMVNRLFLQMFAVMFKVFLISGIASITFFYQPLLRYYKHLQRF---------KNNPPSILTLDQSQWPSKV-ISVF--LMLGITSI---VTLYIFSPKQWYNIFLATANILSCLMEVLMVFVLIDWPDKGESFKHI----EVLLFLGLFG---HLTKEISQLQYFIYNARESYRTIKIIKSLSEILNNMLMNIFLSSLLRKRWHNN-RKLFWIIV--SVLVLIQNFGYVFDELYGKKKEF 1344 SIGL+ + W + + S+ L GS+ + VFLIL+ Y N+K+RN F + +E+ Y IP I FV L+I V S EC+ K +++ + +VF+ +TN +FGE W LNF N L +S++ L+Q F +++ KS +NQ+ I + I L++ + ++K ++ G+ S F ++ L R Y +LQ + K+N + Q K+ + +F L+ GI + + +YI S + +I + M L +F++ + S I EV+++LGL G H I+ Y +YN + +IK + +IL+N++ ++F + L+ K W+N K F + + + + NF Y+F +L KEF Sbjct: 25 SIGLLITYGWNTLTLASN-SFLEFVWAPLYICGSVFNLLVVFLILFALYMNHKYRNLFNKCPMENQDILYYFCIPATI--FVISTLIITLVKSLYIAECNGKMIVLFIFTSVIYFVVIVVFIAETNSVFDFGESWALNFVNMMVSLIIVSSLVFNIVFNTSLEQMDYFAAVINKS---LINQSCIDNLPFIAQRTYYLWVSVRIFLYKSIVLFGLFSTVFIFKSLYRNYLYLQFYKYDGKTNDLKSNDEDVNRNSQKNNLKKLYLKIFSTLLFGILFLAINIAVYIRSKEYLEHILIGMEMFSYISMIGLTIFMMKNLIFTDFSISRIYVFNEVIIWLGLCGQLVHCFAVIAAYIYLMYNEVNAIYIAILIKYVLQILSNIVQSVFEAILVEKLWNNKIGKNFSTMAFGAFYIAVNNFVYIFTDLILVYKEF 450
BLAST of SMED30016933 vs. Planmine SMEST
Match: SMESG000025344.1 (SMESG000025344.1) HSP 1 Score: 51.9878 bits (123), Expect = 7.035e-7 Identity = 70/308 (22.73%), Postives = 144/308 (46.75%), Query Frame = 1 Query: 319 LESNLTFYIILIPLMIVEFVYGVLLIGSVFSTIECSPKFTIVYCLMCLTNSFCYMVFLIDTNKSIEFGEDWKLNFTNFSTLLFAISNIFMFTFLQFHLDQSRVFMSIMGKSTDLCL--NQNITSGDTILGMVNRLFLQMFAVMFKVFLISGIASITFFYQPLLRYYKHLQRFKNNP-----PSILTLDQSQWPSKVISVFLMLGITSIVTLYIFSPKQWYNIFLATANI-------LSCLMEVLMVFVLIDWPDKGESFKHIE-VLLFLGLFGHLTKEISQLQYFIYNAR-------ESYRTIKIIKS 1176 LE L FY+I +P++ + + G+ +I ++ + I+Y + + F +++ +ID N + GE+W +N+ N T++ ++++ + L + + F + M ++T + L N N T D +FL+ AV + + I F PL R HL RFK ++L++++ + +V + L IV L ++ + + +A+ I +SCL+ +++ + I + +++ +L++LG FG + +I+ + IYN + ES + I I+ S Sbjct: 90 LEQPLIFYLICLPMLFISLM-GLFVIIFHYTFEKSGTSTNILYFALVIFEYFLFIILVIDINGFSDTGEEWFMNYFNSMTIIITMTSVMIQICLNIIMILTDDFTNTMNRTTFVSLFSNHNFTIFDKTCYR-TLVFLKKRAV-----ITLSLVFIPFLVIPLKRNLTHLFRFKPKEDLPEDKTVLSMNKVSSITGGFTVGVFLTFIVIVHL-LYVMQNVPQVIIASRIIKLLVSFFISCLLGIMITEIKISARLNSSQYLNVKNILIYLGAFGQFSVQITNIVVNIYNLQTNGNGLFESTKDILILTS 389 The following BLAST results are available for this feature:
BLAST of SMED30016933 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30016933 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30016933 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30016933 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30016933 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30016933 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30016933 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30016933 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30016933 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30016933 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30016933 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30016933 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30016933 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30016933 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 >SMED30016933 ID=SMED30016933|Name=SMED30016933|organism=Schmidtea mediterranea sexual|type=transcript|length=1547bpback to top protein sequence of SMED30016933-orf-1 >SMED30016933-orf-1 ID=SMED30016933-orf-1|Name=SMED30016933-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=484bp MDISERNYRIQKLRHLKEIYIYNLLVFFISIGLVHSVSWMAMKVDSDIHHback 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
|