SMED30024777
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., 2020SMED30024777 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Homology
BLAST of SMED30024777 vs. Planmine SMEST
Match: SMESG000011608.1 (SMESG000011608.1) HSP 1 Score: 640.188 bits (1650), Expect = 0.000e+0 Identity = 339/339 (100.00%), Postives = 339/339 (100.00%), Query Frame = 3 Query: 81 MKLALTMDADKCDLSNLLKRLKESNEEETKIKNKISRQKEEIVKTEKMMQQFQDCLTEQNELLSRLCNNQENAINTTNQIIQAIKQLDNENEEVSTYEDLKNSINSVHSETLIVKNEDKMNLSIIINETDFPVNEIQILPKNEQEIIEPKKRKLNESINGESENSLFVKDKKVESGPFGVCEHRDSKIAELNAEKLKYIQRAKTLEYQCWALESTWFKPEQMRKAQESIQAQRAHIERDEIEIRNLKIQLKGMHIELMKAKNDHHITSSALMSLPYASTELFPPVTYPVIPIYSESLPEEXXXXXXXXXXXXXXXXXXXQEALMMQQQIKSLESALPKL 1097 MKLALTMDADKCDLSNLLKRLKESNEEETKIKNKISRQKEEIVKTEKMMQQFQDCLTEQNELLSRLCNNQENAINTTNQIIQAIKQLDNENEEVSTYEDLKNSINSVHSETLIVKNEDKMNLSIIINETDFPVNEIQILPKNEQEIIEPKKRKLNESINGESENSLFVKDKKVESGPFGVCEHRDSKIAELNAEKLKYIQRAKTLEYQCWALESTWFKPEQMRKAQESIQAQRAHIERDEIEIRNLKIQLKGMHIELMKAKNDHHITSSALMSLPYASTELFPPVTYPVIPIYSESLPEEKRKSKHRLSRNRRRRIKRRQEALMMQQQIKSLESALPKL Sbjct: 1 MKLALTMDADKCDLSNLLKRLKESNEEETKIKNKISRQKEEIVKTEKMMQQFQDCLTEQNELLSRLCNNQENAINTTNQIIQAIKQLDNENEEVSTYEDLKNSINSVHSETLIVKNEDKMNLSIIINETDFPVNEIQILPKNEQEIIEPKKRKLNESINGESENSLFVKDKKVESGPFGVCEHRDSKIAELNAEKLKYIQRAKTLEYQCWALESTWFKPEQMRKAQESIQAQRAHIERDEIEIRNLKIQLKGMHIELMKAKNDHHITSSALMSLPYASTELFPPVTYPVIPIYSESLPEEKRKSKHRLSRNRRRRIKRRQEALMMQQQIKSLESALPKL 339
BLAST of SMED30024777 vs. Planmine SMEST
Match: SMESG000011608.1 (SMESG000011608.1) HSP 1 Score: 628.246 bits (1619), Expect = 0.000e+0 Identity = 333/333 (100.00%), Postives = 333/333 (100.00%), Query Frame = 3 Query: 99 MDADKCDLSNLLKRLKESNEEETKIKNKISRQKEEIVKTEKMMQQFQDCLTEQNELLSRLCNNQENAINTTNQIIQAIKQLDNENEEVSTYEDLKNSINSVHSETLIVKNEDKMNLSIIINETDFPVNEIQILPKNEQEIIEPKKRKLNESINGESENSLFVKDKKVESGPFGVCEHRDSKIAELNAEKLKYIQRAKTLEYQCWALESTWFKPEQMRKAQESIQAQRAHIERDEIEIRNLKIQLKGMHIELMKAKNDHHITSSALMSLPYASTELFPPVTYPVIPIYSESLPEEXXXXXXXXXXXXXXXXXXXQEALMMQQQIKSLESALPKL 1097 MDADKCDLSNLLKRLKESNEEETKIKNKISRQKEEIVKTEKMMQQFQDCLTEQNELLSRLCNNQENAINTTNQIIQAIKQLDNENEEVSTYEDLKNSINSVHSETLIVKNEDKMNLSIIINETDFPVNEIQILPKNEQEIIEPKKRKLNESINGESENSLFVKDKKVESGPFGVCEHRDSKIAELNAEKLKYIQRAKTLEYQCWALESTWFKPEQMRKAQESIQAQRAHIERDEIEIRNLKIQLKGMHIELMKAKNDHHITSSALMSLPYASTELFPPVTYPVIPIYSESLPEEKRKSKHRLSRNRRRRIKRRQEALMMQQQIKSLESALPKL Sbjct: 1 MDADKCDLSNLLKRLKESNEEETKIKNKISRQKEEIVKTEKMMQQFQDCLTEQNELLSRLCNNQENAINTTNQIIQAIKQLDNENEEVSTYEDLKNSINSVHSETLIVKNEDKMNLSIIINETDFPVNEIQILPKNEQEIIEPKKRKLNESINGESENSLFVKDKKVESGPFGVCEHRDSKIAELNAEKLKYIQRAKTLEYQCWALESTWFKPEQMRKAQESIQAQRAHIERDEIEIRNLKIQLKGMHIELMKAKNDHHITSSALMSLPYASTELFPPVTYPVIPIYSESLPEEKRKSKHRLSRNRRRRIKRRQEALMMQQQIKSLESALPKL 333
BLAST of SMED30024777 vs. Planmine SMEST
Match: SMESG000017444.1 (SMESG000017444.1) HSP 1 Score: 191.815 bits (486), Expect = 9.030e-49 Identity = 96/132 (72.73%), Postives = 110/132 (83.33%), Query Frame = -3 Query: 2279 MDPCTILNTALKNARKENTDLHRQLLQLTKEIHQIKSTWIEPVKAKVLYQPVAATQRGWAEEKRLEQATKTQIHGLEVAQSAYQEGQAVT*PLLFAPAQLAYRTSTDATKPAVKPPQRRPGKIEKAKRQAMR 2674 M T LN ALK+ARKENTDLHRQ+L++T+EI +IKSTWIEP K KVLYQ V A QR WAEEKRL QA +TQI GLEVA +A QEGQ+VT PL+FAPAQLAYR ST ATKPA+K PQRRPGK E+A+R+AMR Sbjct: 1 MVTATGLNQALKDARKENTDLHRQMLEMTREIQRIKSTWIEPSKVKVLYQRVTAAQRRWAEEKRLVQAMRTQIRGLEVALAACQEGQSVTYPLVFAPAQLAYRDSTCATKPAIKSPQRRPGKFERARRRAMR 132
BLAST of SMED30024777 vs. Planmine SMEST
Match: SMESG000020037.1 (SMESG000020037.1) HSP 1 Score: 166.777 bits (421), Expect = 1.993e-47 Identity = 83/130 (63.85%), Postives = 100/130 (76.92%), Query Frame = -3 Query: 2285 MDPCTILNTALKNARKENTDLHRQLLQLTKEIHQIKSTWIEPVKAKVLYQPVAATQRGWAEEKRLEQATKTQIHGLEVAQSAYQEGQAVT*PLLFAPAQLAYRTSTDATKPAVKPPQRRPGKIEKAKRQA 2674 M P I + L+ +R+EN +LH+QL+Q+TKEIHQIK+TW+EP K K LYQ + A QRGWAEEK+L Q K QI LEVA SA QEG AVT PL+FAPAQLAYR +T+ TKPA KP RRPGK E+AKR+A Sbjct: 1 MGPYKISSRELEKSRRENAELHQQLIQMTKEIHQIKATWVEPGKVKSLYQKMTAAQRGWAEEKQLHQTQKVQIRSLEVALSACQEGNAVTYPLVFAPAQLAYREATETTKPATKPTPRRPGKAERAKRRA 130
BLAST of SMED30024777 vs. Planmine SMEST
Match: SMESG000013157.1 (SMESG000013157.1) HSP 1 Score: 102.064 bits (253), Expect = 8.849e-44 Identity = 47/92 (51.09%), Postives = 66/92 (71.74%), Query Frame = -3 Query: 2918 IARLETHQKKTNKEVNRGRQHLNQINKDIAAGLIPSTDWYAPSYGISFELDDPRVNQPAQAMTVSMPKKILPRGIRTETGDRMYEWDHSYTR 3193 +ARLE HQ +TN++V + RQ+L ++N+DIAAG IPSTD YAP Y +SFELDDPR+ + M V++P+ ILP+ +R E + +HSY R Sbjct: 165 LARLERHQAETNRQVEQARQYLRRVNEDIAAGRIPSTDGYAPQYNVSFELDDPRLQRQMSEMRVAVPRHILPKEMRNENDIAEPQREHSYAR 256 HSP 2 Score: 96.6709 bits (239), Expect = 8.849e-44 Identity = 42/71 (59.15%), Postives = 56/71 (78.87%), Query Frame = -2 Query: 3195 WMDESRITMRFPSHSAAKCQQAMWDKGYSISPVRKSRFERQDEMEDAERPYIAIKREPGRNPAQEPRGQAE 3407 W+D SR+ RFP+HSAA+C+QAMWD G+SI PVR++R Q + + + Y+AIKREPGR+PA+E RGQAE Sbjct: 92 WIDASRVIARFPAHSAARCRQAMWDAGFSIFPVRETRGGTQGDSNEVDLSYVAIKREPGRSPAREMRGQAE 162 The following BLAST results are available for this feature:
BLAST of SMED30024777 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30024777 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30024777 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30024777 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30024777 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30024777 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30024777 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30024777 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30024777 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30024777 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30024777 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30024777 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30024777 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30024777 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 >SMED30024777 ID=SMED30024777|Name=SMED30024777|organism=Schmidtea mediterranea sexual|type=transcript|length=5046bpback to top protein sequence of SMED30024777-orf-1 >SMED30024777-orf-1 ID=SMED30024777-orf-1|Name=SMED30024777-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=122bp MDESRITMRFPSHSAAKCQQAMWDKGYSISPVRKSRFERQDEMEDAERPYback to top protein sequence of SMED30024777-orf-2 >SMED30024777-orf-2 ID=SMED30024777-orf-2|Name=SMED30024777-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=340bp MKLALTMDADKCDLSNLLKRLKESNEEETKIKNKISRQKEEIVKTEKMMQback to top Annotated Terms
The following terms have been associated with this transcript:
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