SMED30028280
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., 2020SMED30028280 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 10Note: Hover over icons to view figure legend
Alignments
SMED30028280 aligns in the following genomic locations:
Homology
BLAST of SMED30028280 vs. TrEMBL
Match: R7TBF7 (Uncharacterized protein OS=Capitella teleta OX=283909 GN=CAPTEDRAFT_218860 PE=4 SV=1) HSP 1 Score: 62.7734 bits (151), Expect = 1.839e-7 Identity = 42/181 (23.20%), Postives = 84/181 (46.41%), Query Frame = 2 Query: 47 NILNYLVILCSLDMAHSFRYWTHNNFVNPLINSNFCKLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCK---CNEEHKDGLEVGVVVLSRI---------NREQSNCKLMENYFE---CFSRNILKNWEMSSCGNDMLIVIEKNDGLLKSNIYF---GSNADKSMSSFCISRI 535 +L + ++ + A + + + NP ++ C G+ R YICDP L + +++ LL I++ + C C CN H G ++G+ ++ +I E+ +++ E F+ +LK W+M +CG D++I+ D N+++ G A+K +++ I I Sbjct: 15 QLLVFAIVCWASAFAQDGDIYAADEYPNPFFDTQACGRGT-QRSYICDPSFILKAEEAQQLEALLGIIRNETACPCADHYCNAAHP-GYKIGIALVKKIAPSNPMKTGEDEKDPSFVIQQNLEKSSLFAYTLLKRWQMGACGEDVIILYSVVD-----NVFYTITGEVAEKKLTASMIGDI 188
BLAST of SMED30028280 vs. TrEMBL
Match: A0A3M6TW21 (Uncharacterized protein OS=Pocillopora damicornis OX=46731 GN=pdam_00013131 PE=4 SV=1) HSP 1 Score: 59.6918 bits (143), Expect = 1.739e-6 Identity = 46/161 (28.57%), Postives = 79/161 (49.07%), Query Frame = 2 Query: 59 YLVIL---CSLDMAHSFRYWTHNNFVNPLINSNFC-KLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCKCNEEHKDGLEVGVVVLSRINREQSNCKLMENYFECFSRNILKNWEMSSCGND---MLIVIEKNDGLLKSNIYF--GSNADKSMS 514 +LVI C L + R W +F NP + C + G + +ICDPE L YK +I+ L++++ N+ C +E K G ++GV VL+R+ + +E + F++++ +W + G D ML++ +L +Y G A KS+S Sbjct: 8 FLVIFAAFCFLQEGRTTREWYKEDFPNPTRDVKGCGRRGEVS--WICDPENILSYKAANKIEELIYSVVKNTYSGCSNDE--KPGFQIGVAVLNRMRGIPG--EPVEETAKTFAKHLHDSWGVGHAGCDDGAMLLI-----SILDRQLYVSTGKRAMKSLS 157
BLAST of SMED30028280 vs. TrEMBL
Match: A0A1E1WXB3 (Putative conserved secreted protein (Fragment) OS=Amblyomma aureolatum OX=187763 PE=2 SV=1) HSP 1 Score: 58.151 bits (139), Expect = 1.790e-6 Identity = 26/120 (21.67%), Postives = 59/120 (49.17%), Query Frame = 2 Query: 104 YWTHNNFVNPLINSNFCKLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCK-CNEEHKDGLEVGVVVLSRINREQSNCKLMENYFECFSRNILKNWEMSSCGNDMLIVIEKND 460 YW + + +P+ +C + ++CDP++ + K +D ++ I++ + C C C++ G+ +GV ++ I+R + M F+ + + W + C +D+L++I D Sbjct: 43 YWRVDEYPHPITQPRYCN--RYRASFVCDPDRVINKKQADSLDRIIERIRNETLCICPTCDKSQASGITLGVAIMEHIHRPHN--LPMSEAVRLFAERLRRQWGLGHCDDDILLLISAKD 158
BLAST of SMED30028280 vs. Ensembl Nematostella
Match: EDO30764 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SZU4]) HSP 1 Score: 45.8246 bits (107), Expect = 4.099e-6 Identity = 26/122 (21.31%), Postives = 55/122 (45.08%), Query Frame = 2 Query: 101 RYWTHNNFVNPLINSNFCKLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCKCNEEHKDGLEVGVVVLSRINREQSNCKLMENYFECFSRNILKNWEMS--SCGNDMLIVIEKND 460 + W+ NF NP+ ++ C + +ICDP++ L Y ++ +L NI+ + + C K G ++ V ++ +I E F+ ++ +W + CG+ + ++ D Sbjct: 3 KEWSKENFPNPIKDTEMCGRRGVS-SWICDPDEVLSYADANTLEEMLRNIEQKT--TSGCEHSRKPGYQIAVALMKKIKHHYGISG--EELARDFAVHLHDSWGVGHRGCGDGAVFLLSVTD 119
BLAST of SMED30028280 vs. Planmine SMEST
Match: SMESG000016792.1 (SMESG000016792.1) HSP 1 Score: 641.343 bits (1653), Expect = 0.000e+0 Identity = 315/315 (100.00%), Postives = 315/315 (100.00%), Query Frame = 2 Query: 44 MNILNYLVILCSLDMAHSFRYWTHNNFVNPLINSNFCKLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCKCNEEHKDGLEVGVVVLSRINREQSNCKLMENYFECFSRNILKNWEMSSCGNDMLIVIEKNDGLLKSNIYFGSNADKSMSSFCISRIRKDVEVSLTSVNKLLAILNRINLFVTDNRYCSRAFDIGENTWEFKAEMLLGLIIGFSVITIVLIFVVPCCKRRNSSVDDSRPRNSNIVRPFRQTAATVNQSELPPNYLDITKIDKESIEDSKPEILLVDTIVIGQDPPSYSDVLRFSKLKY 988 MNILNYLVILCSLDMAHSFRYWTHNNFVNPLINSNFCKLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCKCNEEHKDGLEVGVVVLSRINREQSNCKLMENYFECFSRNILKNWEMSSCGNDMLIVIEKNDGLLKSNIYFGSNADKSMSSFCISRIRKDVEVSLTSVNKLLAILNRINLFVTDNRYCSRAFDIGENTWEFKAEMLLGLIIGFSVITIVLIFVVPCCKRRNSSVDDSRPRNSNIVRPFRQTAATVNQSELPPNYLDITKIDKESIEDSKPEILLVDTIVIGQDPPSYSDVLRFSKLKY Sbjct: 1 MNILNYLVILCSLDMAHSFRYWTHNNFVNPLINSNFCKLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCKCNEEHKDGLEVGVVVLSRINREQSNCKLMENYFECFSRNILKNWEMSSCGNDMLIVIEKNDGLLKSNIYFGSNADKSMSSFCISRIRKDVEVSLTSVNKLLAILNRINLFVTDNRYCSRAFDIGENTWEFKAEMLLGLIIGFSVITIVLIFVVPCCKRRNSSVDDSRPRNSNIVRPFRQTAATVNQSELPPNYLDITKIDKESIEDSKPEILLVDTIVIGQDPPSYSDVLRFSKLKY 315
BLAST of SMED30028280 vs. Planmine SMEST
Match: SMESG000016792.1 (SMESG000016792.1) HSP 1 Score: 516.153 bits (1328), Expect = 0.000e+0 Identity = 252/256 (98.44%), Postives = 253/256 (98.83%), Query Frame = 2 Query: 86 MAHSFRYWTHNNFVNPLINSNFCKLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCKCNEEHKDGLEVGVVVLSRINREQSNCKLMENYFECFSRNILKNWEMSSCGNDMLIVIEKNDGLLKSNIYFGSNADKSMSSFCISRIRKDVEVSLTSVNKLLAILNRINLFVTDNRYCSRAFDIGENTWEFKAEMLLGLIIGFSVITIVLIFVVPCCKRRNSSVDDSRPRNSNIVRPFRQTAATVNQSELPPN 853 MAHSFRYWTHNNFVNPLINSNFCKLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCKCNEEHKDGLEVGVVVLSRINREQSNCKLMENYFECFSRNILKNWEMSSCGNDMLIVIEKNDGLLKSNIYFGSNADKSMSSFCISRIRKDVEVSLTSVNKLLAILNRINLFVTDNRYCSRAFDIGENTWEFKAEMLLGLIIGFSVITIVLIFVVPCCKRRNSSVDDSRPRNSNIVRPFRQTAATVNQS P+ Sbjct: 1 MAHSFRYWTHNNFVNPLINSNFCKLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCKCNEEHKDGLEVGVVVLSRINREQSNCKLMENYFECFSRNILKNWEMSSCGNDMLIVIEKNDGLLKSNIYFGSNADKSMSSFCISRIRKDVEVSLTSVNKLLAILNRINLFVTDNRYCSRAFDIGENTWEFKAEMLLGLIIGFSVITIVLIFVVPCCKRRNSSVDDSRPRNSNIVRPFRQTAATVNQSGESPD 256
BLAST of SMED30028280 vs. Planmine SMEST
Match: SMESG000073734.1 (SMESG000073734.1) HSP 1 Score: 80.8777 bits (198), Expect = 9.002e-17 Identity = 81/320 (25.31%), Postives = 130/320 (40.62%), Query Frame = 2 Query: 101 RYWTHNNFVNPLINSNFCKLGSFNRQYICDPEQYLPYKIKYEIDTLLFNIKSNSRCSCKCNE-----EHKDGLEVGVVVLSRINREQSNCKLMENYFECFSRNILKNWEMSSC-GNDMLIVIEKNDGLLKSNIYFGSNADKSMSSFCISRIRKDVEVSLTSVNKLLAILNRINLFVTDNRYCSRAFDIGENTWEFKAEMLLGLII------GFSVITIVLIFVVPCCKRRNS-SVDDSRPRNSNIVRPFRQTAA-------TVNQSELPPNYLDITKIDKESIEDSKPEILLVDTI-----------VIGQDPPSYSDVL 967 + W + NPLIN FC++ ICDPE L +K + L + S C CNE ++K L G+V++S IN N + +E FS IL NW +S C GN++LI++ K ++ IYFG+ K + + C+ R++ + + L I I ++ C+ + W +G+I+ G S +V F R N S +RPR P R ++ + PP+Y + K + P+I + T I + PP+Y+ V Sbjct: 19 KVWNADEIKNPLINPEFCQVNFNEPSLICDPENELAITLKKTLSKYLLHGFPVST-PCFCNEGCDAFDYKRRLMAGIVIVSSINETSVNYSGDLDIYESFSERILSNWNISQCLGNNVLILVTKK----QTQIYFGTAVRKRIPNSCLKRLKSLIRQYIPLPYNLRTIFKNIIEYIRKPCMCNDSCTYRHLKWLTNVVFFMGVIVLVTCIGGMSRRALVAKFHDRPFPRSNLISNAFTRPR-----LPARSNVTNNGNDILQMSGNHNPPDYSTLGPFTKPPPYNPSPDISVPKTQEYSSTNQTTRDQIQESPPAYTLVF 328 The following BLAST results are available for this feature:
BLAST of SMED30028280 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30028280 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30028280 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30028280 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30028280 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30028280 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30028280 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30028280 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 3
BLAST of SMED30028280 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30028280 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30028280 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30028280 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 1
BLAST of SMED30028280 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30028280 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 >SMED30028280 ID=SMED30028280|Name=SMED30028280|organism=Schmidtea mediterranea sexual|type=transcript|length=1117bpback to top protein sequence of SMED30028280-orf-1 >SMED30028280-orf-1 ID=SMED30028280-orf-1|Name=SMED30028280-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=316bp MNILNYLVILCSLDMAHSFRYWTHNNFVNPLINSNFCKLGSFNRQYICDPback 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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