SMED30000205
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., 2020SMED30000205 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 1
Homology
BLAST of SMED30000205 vs. TrEMBL
Match: A0A2B4SIV5 (Uncharacterized protein OS=Stylophora pistillata OX=50429 GN=AWC38_SpisGene6913 PE=4 SV=1) HSP 1 Score: 86.2705 bits (212), Expect = 7.189e-15 Identity = 86/278 (30.94%), Postives = 137/278 (49.28%), Query Frame = 2 Query: 5 KKEAEEIFHIFNAAHPDIKFEIE----YPDENG-SLNLLDLRIKIDVDTXXXXXXXXXXXXXXXXXDTPTYGFYKKSAHKEIFMHQRSALPYLQKVNVIKNEKQRIANRCTE----------GEEVLRRNEYHN*DIEIIISK-PKHLR-------TEHKKEKI-LLSKHSIHRIQDPERAQSTDLPIRISHKSWTXXXXEASTGKQHKKRKHLHNGKLPVTKK-ICFRKNIVYCIR-NVCKELYIGSTLRIYIKELKNT*TYRKITNNANQGRNKSI 760 ++ A+ H+ N HP+++FE E NG SL+LLD ++ I D ++ FY++ A K +F+H +SA+P K+ I+NE++RI +RC+ + +LR N+Y +IE SK P+H + TE KI +S+ HRI + + + ++PIRISHKS+T + T K K + K P++ +C R+N+VY + N CK+ YIG T R +I++ R+ NN N K I Sbjct: 250 EETADHFHHVINNLHPNLRFENEKLKNQKTPNGMSLSLLDFKVTISKDGNS------------------SFEFYQRPAKKPLFVHYQSAIPTKSKLASIRNERKRIEDRCSSHISATQHLNAFDGILRLNDYPESNIE--QSKHPQHPQSNSQPANTEWSYLKISYISERLNHRISNIFKKE--NIPIRISHKSFTLRHALSQTPKVRKCTR----DKCPISNTGLCLRRNVVYQLTCNSCKQQYIGRTKR-FIQD-----RVREHLNNGNSSVKKHI 495
BLAST of SMED30000205 vs. TrEMBL
Match: A0A3M6TYW2 (GIY-YIG domain-containing protein OS=Pocillopora damicornis OX=46731 GN=pdam_00017828 PE=4 SV=1) HSP 1 Score: 75.0998 bits (183), Expect = 3.744e-11 Identity = 81/316 (25.63%), Postives = 138/316 (43.67%), Query Frame = 2 Query: 41 AAHPDIKFEIEYPD---ENGSLNLLDLRIKIDVDTXXXXXXXXXXXXXXXXXDTPTYGFYKKSAHKEIFMHQRSALPYLQKVNVIKNEKQRIANRCTEG----------EEVLRRNEYHN*DIEIIISKPKHLRTEHKKEKILLSKH----SIHRIQDPERAQST------DLPIRISHKSWTXXXXEASTGKQHKKRKHLHNGKLPVTK-KICFRKNIVYCIR-NVCKELYIGSTLRIYIKELK-----NT*TYRKITNNANQGRNKSISIKILAGNN--IQKKYSEFK*GNYCFSIGDPSINTKEEISEIASLI 892 + HP +KFEIE P E SL+ LD ++ I ++ + FYKK A K +F+H +SALP K N I N+++RI RC+ + +LR N Y E II + KHL+ H+++ +K I I D + T ++P+RI+HKS+T + + K + P+ +C ++N +Y + C E YIGS + K + + +K ++ + +I +K++ N + + E Y P +N++EE +E+ L+ Sbjct: 296 SLHPRLKFEIEKPTASPEGLSLSPLDFKVTITTNSESY------------------FEFYKKPAKKPLFVHHQSALPKRSKTNFIHNKRRRIQQRCSTQITSNKHDRNFDNILRLNGY----PECIIHETKHLQ-NHQRDPQTQTKEWHYLKIPCISDQLNRKITGIFKRGNIPVRIAHKSYTMRQALSHNTTERKCNR----PNCPIADTNLCLQRNTIYQLTCKACGEYYIGSMTQFLHDRTKEHLTNDNSSVKKHLTTHHRNNSHNIEVKVITRENDPVNLRLYEV----YYIRKHKPGLNSREECTELNDLL 580
BLAST of SMED30000205 vs. TrEMBL
Match: A0A3M6U742 (Uncharacterized protein OS=Pocillopora damicornis OX=46731 GN=pdam_00023955 PE=4 SV=1) HSP 1 Score: 65.855 bits (159), Expect = 2.897e-8 Identity = 78/297 (26.26%), Postives = 123/297 (41.41%), Query Frame = 2 Query: 14 AEEIFHIFNAAHPDIKFEIEYPDENG---SLNLLDLRIKIDVDTXXXXXXXXXXXXXXXXXDTPTYGFYKKSAHKEIFMHQRSALPYLQKVNVIKNEKQRIANRCTEGEEVLRRNEYHN*DIEIIISKPKHLRTEHKKEKILLSKHSIHR-IQDPERAQSTDLPIRISHKSWTXXXXEASTGKQHKKRKHLHNGKLPVTKKICFRKNIVYCIRNVCKELYIGSTLRIYIKELKNT*TYRKITNNANQGRNKSISIKILAGNNIQKKYSEFK*GNYCFSIGDPSINTKEEISEIASLI 892 A+ HI N H ++KFEIE SL+LLD ++ I D ++ FYKK +F+H +SA+P K+N I+NE +RI RC+ + + N N P TE KIL ++R I + R + ++P+R +HKS+ + T K+ K + K P++ N C+R C + IGST R KN Y+ N ++++ I+K P++N++EE SE L+ Sbjct: 24 ADHFRHIINNVHSNLKFEIEKSQTTPRGLSLSLLDFKVTIFKD------------------GNSSFEFYKKP----LFIHHQSAIPTKSKLNFIRNEWKRIKGRCSSHNNIEQTNCPQNPQ-----RNPHPTNTECSYLKILYISEQLNRKITNTFRKE--NIPVRTAHKSYILRQALSHTPKECKCTR----DKSPIS-------NTGLCLR--CDQQCIGSTTRFIHDHNKN---YKGFHVKVIISENDPANLRLYEAFYIRK--------------CKPTLNSREECSEFVDLL 261
BLAST of SMED30000205 vs. TrEMBL
Match: A0A2B4SHU4 (T-box transcription factor TBX5-A OS=Stylophora pistillata OX=50429 GN=tbx5a PE=4 SV=1) HSP 1 Score: 65.4698 bits (158), Expect = 6.223e-8 Identity = 57/190 (30.00%), Postives = 91/190 (47.89%), Query Frame = 2 Query: 14 AEEIFHIFNAAHPDIKFEIEYPD---ENGSLNLLDLRIKIDVDTXXXXXXXXXXXXXXXXXDTPTYGFYKKSAHKEIFMHQRSALPYLQKVNVIKNEKQRIANRCTE----------GEEVLRRNEYHN*DIEIIISKPKH-------LRTEHKKEKI-LLSKHSIHRIQDPERAQSTDLPIRISHKSWT 520 A H+ N HP++KFEI+ P+ SL+LLD ++ I D ++ FY+K K +F+H +SA+P K+N I+NE++RI +RC+ + +L R ++E +P+H TE KI +S+ HRI + R + ++PIRISHK +T Sbjct: 383 AHHFHHVINNEHPNLKFEIKKPETTPSGMSLSLLDFKVTISKDGNS------------------SFEFYRKPPKKPLFVHYQSAIPTKSKLNFIRNERKRIEDRCSSHISATQHQNTFDNILCRQGNPENNVE-QSKRPQHPQRNSQPANTEWSYLKIPYISELLNHRISNIFRKE--NIPIRISHKFFT 551
BLAST of SMED30000205 vs. TrEMBL
Match: A0A2B4SFN3 (Uncharacterized protein OS=Stylophora pistillata OX=50429 GN=AWC38_SpisGene7412 PE=4 SV=1) HSP 1 Score: 60.8474 bits (146), Expect = 2.601e-7 Identity = 35/101 (34.65%), Postives = 53/101 (52.48%), Query Frame = 2 Query: 14 AEEIFHIFNAAHPDIKFEIEYPD---ENGSLNLLDLRIKIDVDTXXXXXXXXXXXXXXXXXDTPTYGFYKKSAHKEIFMHQRSALPYLQKVNVIKNEKQRI 307 A+ H+ N HP++KFEIE P+ SL+LLD ++ I D ++ FYKK A K + +H +SA+P K+N I+NE++RI Sbjct: 35 ADHFHHVMNNVHPNLKFEIEKPETTPSGMSLSLLDFKVTISKDGNS------------------SFEFYKKPAKKPLSVHYQSAIPPKSKLNFIRNERKRI 117
BLAST of SMED30000205 vs. Planmine SMEST
Match: SMESG000069853.1 (SMESG000069853.1) HSP 1 Score: 179.489 bits (454), Expect = 1.185e-53 Identity = 103/172 (59.88%), Postives = 118/172 (68.60%), Query Frame = 2 Query: 8 KEAEEIFHIFNAAHPDIKFEIEYPDENGSLNLLDLRIKIDVDTXXXXXXXXXXXXXXXXXDTPTYGFYKKSAHKEIFMHQRSALPYLQKVNVIKNEKQRIANRCTEGEE----------VLRRNEYHN*DIEIIISKPKH-LRTEHKKEKILLSKHSIHRIQDPERAQSTDL 490 K+A+EIFHI NAAHP+IKFEIEYPDENGSLNLLDLRIKIDVDT PT+ FYK SAH+EIFMHQRS+LPYLQKV VI+NEKQRIANRCTE ++ VL +N YHN DIE + SKPK + KKE+ILLSKH IH+ A S +L Sbjct: 158 KDAKEIFHISNAAHPNIKFEIEYPDENGSLNLLDLRIKIDVDT-------------------PTFEFYKISAHEEIFMHQRSSLPYLQKVYVIRNEKQRIANRCTEVKDNYKQQLNFNVVLSKNGYHNEDIETMNSKPKTPIDRTQKKEEILLSKHPIHQRDSDLEAFSLNL 310
BLAST of SMED30000205 vs. Planmine SMEST
Match: SMESG000049225.1 (SMESG000049225.1) HSP 1 Score: 139.813 bits (351), Expect = 7.564e-38 Identity = 76/119 (63.87%), Postives = 82/119 (68.91%), Query Frame = 2 Query: 5 KKEAEEIFHIFNAAHPDIKFEIEYPDENGSLNLLDLRIKIDVDTXXXXXXXXXXXXXXXXXDTPTYGFYKKSAHKEIFMHQRSALPYLQKVNVIKNEKQRIANRCTEGEEVLRRNEYHN 361 KKEAEEIFHIFN HP+IKFEIEYPD NGSLNLLDLRIKIDV DTPTY KKSA +EIFMHQRSALP LQKVN IKN+KQRIANR ++ RN +N Sbjct: 165 KKEAEEIFHIFNEDHPEIKFEIEYPDINGSLNLLDLRIKIDV-------------------DTPTYELCKKSAGEEIFMHQRSALPNLQKVNFIKNDKQRIANRSLFDQKKFNRNAMYN 264 The following BLAST results are available for this feature:
BLAST of SMED30000205 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30000205 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30000205 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30000205 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30000205 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30000205 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30000205 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30000205 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30000205 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30000205 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30000205 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30000205 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30000205 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30000205 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 2
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30000205 ID=SMED30000205|Name=SMED30000205|organism=Schmidtea mediterranea sexual|type=transcript|length=1004bpback to top protein sequence of SMED30000205-orf-1 >SMED30000205-orf-1 ID=SMED30000205-orf-1|Name=SMED30000205-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=121bp SKKEAEEIFHIFNAAHPDIKFEIEYPDENGSLNLLDLRIKIDVDTXXXXXback to top Annotated Terms
The following terms have been associated with this transcript:
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