SMED30028709

Overview
NameSMED30028709
Smed IDSMED30028709
Length (bp)1128
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 progenies


We 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

 

t-SNE plot shows two-dimensional representation of global gene expression relationships among all neoblasts (n = 7,088 after filter). Cluster identity was assigned based on the top 10 marker genes of each cluster (Table S2), followed by inspection of RNA in situ hybridization patterns. Neoblast groups, Nb.


Expression of SMED30028709 (SMED30028709) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30028709 (SMED30028709) in cells (dots) of each of the 12 neoblast clusters.

 

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Sub-lethal Irradiated Surviving X1 and X2 Cell Population

 

t-SNE plot of surviving X1 and X2 cells (n = 1,039 after QC filter) after sub-lethal irradiation. Colors indicate unbiased cell classification via graph-based clustering. SL, sub-lethal irradiated cell groups.

Expression of SMED30028709 (SMED30028709) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30028709 (SMED30028709) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

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Embryonic Expression

Davies et. al., 2017

Hover the mouse over a column in the graph to view average RPKM values per sample.
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset

Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult.
For further information about sample preparation and analysis for the single animal RNA-Seq experiment, please refer to the Materials and Methods

 

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Anatomical Expression

PAGE et. al., 2020



SMED30028709

has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGE



PAGE Curations: 2

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X1 cellSMED30028709SMESG000035966.1 SmedASXL_010439SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
X2 cellSMED30028709SMESG000035966.1 SmedASXL_010439SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30028709 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.000391:174214..175428 +5586
Homology
[Close]
BLAST of SMED30028709 vs. Ensembl Human
Match: WDR53 (WD repeat domain 53 [Source:HGNC Symbol;Acc:HGNC:28786])

HSP 1 Score: 53.1434 bits (126), Expect = 3.408e-7
Identity = 38/155 (24.52%), Postives = 73/155 (47.10%), Query Frame = 2 
Query:  329 EEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRHQTDDAIKLQNFNLTSLVNDDEIDFHEFIS----LAPPLINDLAVYK--DFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVS 775
            EEI  +S++ ++N +A  DD+G +K+ D  + + + +   H+NI +SV         ++S G+D ++++        K +   +T+L  D+  +     S    L P L + ++V    +   CG E+  + +F         E  F  H+ GVS
Sbjct:   95 EEINCLSLNQTENLLASADDSGAIKILDLENKKVIRSLKRHSNICSSVAFRPQRPQSLVSCGLDMQVMLW----SLQKARPLWITNLQEDETEEMEGPQSPGQLLNPALAHSISVASCGNIFSCGAEDGKVRIFRVMGVKCEQELGFKGHTSGVS 245
[Close]
BLAST of SMED30028709 vs. Ensembl Xenopus
Match: cables2 (Cdk5 and Abl enzyme substrate 2 [Source:Xenbase;Acc:XB-GENE-963205])

HSP 1 Score: 60.077 bits (144), Expect = 1.866e-9
Identity = 44/155 (28.39%), Postives = 74/155 (47.74%), Query Frame = 2 
Query:  326 NEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRHQTDDAIKLQNFNLTSLVNDDE-IDFHEFIS--LAPPLINDLAVYK--DFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVS 775
             EE+  IS++ +D+ +A  DD+G +KV D    +   + + HTNI ++V         ++S G+D ++++ +    A  L   NL  L  D+E  D+ +       PPL + L+V    +   CG E+  I +F         E  F  H+ GVS
Sbjct:   94 KEEVNCISVNETDSLLAAADDSGSVKVLDLEKKKVTRSLHRHTNICSAVSFRPHWPHSLVSCGLDMQVLLWN-VQKARPLWITNLQHLSQDEEDTDYQQSPGQLFNPPLAHSLSVAASGNTFCCGAEDGKIRVFQVTGTRFEEELFFKGHTQGVS 247
[Close]
BLAST of SMED30028709 vs. Ensembl Mouse
Match: Wdr53 (WD repeat domain 53 [Source:MGI Symbol;Acc:MGI:1916230])

HSP 1 Score: 51.2174 bits (121), Expect = 1.138e-6
Identity = 37/157 (23.57%), Postives = 69/157 (43.95%), Query Frame = 2 
Query:  329 EEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRH-QTDDAIKLQNFNLTSLVNDDEIDFHEFISLAPPLIN-------DLAVYKDFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVS 775
            EEI  +S++ +++ +A  DD+G +K+ D    +   +   H+NI +SV         ++S G+D ++++   Q    + + N        +DE +  E       L+N        +A   +   CG E+  + +F         E  F  H+LGVS
Sbjct:   95 EEINCLSLNETESLLASADDSGAIKILDLEKKKVTRSLKRHSNICSSVAFRPQRPQSLVSCGLDMQVMLWSLQKARPVWITNL------QEDETEETEGPQTPGRLLNPALAHSVSVASCGNIFSCGAEDGKVRIFRVMGVKCERELGFKGHTLGVS 245
[Close]
BLAST of SMED30028709 vs. Ensembl Mouse
Match: Wdr53 (WD repeat domain 53 [Source:MGI Symbol;Acc:MGI:1916230])

HSP 1 Score: 51.2174 bits (121), Expect = 1.138e-6
Identity = 37/157 (23.57%), Postives = 69/157 (43.95%), Query Frame = 2 
Query:  329 EEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRH-QTDDAIKLQNFNLTSLVNDDEIDFHEFISLAPPLIN-------DLAVYKDFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVS 775
            EEI  +S++ +++ +A  DD+G +K+ D    +   +   H+NI +SV         ++S G+D ++++   Q    + + N        +DE +  E       L+N        +A   +   CG E+  + +F         E  F  H+LGVS
Sbjct:   95 EEINCLSLNETESLLASADDSGAIKILDLEKKKVTRSLKRHSNICSSVAFRPQRPQSLVSCGLDMQVMLWSLQKARPVWITNL------QEDETEETEGPQTPGRLLNPALAHSVSVASCGNIFSCGAEDGKVRIFRVMGVKCERELGFKGHTLGVS 245
[Close]
BLAST of SMED30028709 vs. Ensembl Mouse
Match: Wdr53 (WD repeat domain 53 [Source:MGI Symbol;Acc:MGI:1916230])

HSP 1 Score: 50.447 bits (119), Expect = 1.229e-6
Identity = 37/158 (23.42%), Postives = 69/158 (43.67%), Query Frame = 2 
Query:  326 NEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRH-QTDDAIKLQNFNLTSLVNDDEIDFHEFISLAPPLIN-------DLAVYKDFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVS 775
             EEI  +S++ +++ +A  DD+G +K+ D    +   +   H+NI +SV         ++S G+D ++++   Q    + + N        +DE +  E       L+N        +A   +   CG E+  + +F         E  F  H+LGVS
Sbjct:   94 EEEINCLSLNETESLLASADDSGAIKILDLEKKKVTRSLKRHSNICSSVAFRPQRPQSLVSCGLDMQVMLWSLQKARPVWITNL------QEDETEETEGPQTPGRLLNPALAHSVSVASCGNIFSCGAEDGKVRIFRVMGVKCERELGFKGHTLGVS 245
[Close]
BLAST of SMED30028709 vs. UniProt/SwissProt
Match: sp|Q32KQ2|WDR53_BOVIN (WD repeat-containing protein 53 OS=Bos taurus OX=9913 GN=WDR53 PE=2 SV=1)

HSP 1 Score: 54.299 bits (129), Expect = 7.246e-7
Identity = 40/155 (25.81%), Postives = 74/155 (47.74%), Query Frame = 2 
Query:  329 EEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRHQTDDAIKLQNFNLTSLVNDDEIDFHEFIS----LAPPLINDLAVYK--DFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVS 775
            EEI  +S++ ++N +A  DD+G +K+ D  + +   +   H+NI +SV         ++S G+D ++++     +  K +   +T+L  D+  +     S    L P L + ++V    +   CG E+  + +F         E  F  HSLGVS
Sbjct:   95 EEINCLSLNETENLLASADDSGTIKILDLENKKISRSLKRHSNICSSVAFRPQRPQSLVSCGLDMQVMLW----NLRKARPLWITNLQEDETEEMESPQSPGQLLNPALAHSVSVASCGNVFSCGAEDGKVRIFRVMGVKCEQELGFKGHSLGVS 245
[Close]
BLAST of SMED30028709 vs. UniProt/SwissProt
Match: sp|Q7Z5U6|WDR53_HUMAN (WD repeat-containing protein 53 OS=Homo sapiens OX=9606 GN=WDR53 PE=2 SV=1)

HSP 1 Score: 53.1434 bits (126), Expect = 1.637e-6
Identity = 38/155 (24.52%), Postives = 73/155 (47.10%), Query Frame = 2 
Query:  329 EEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRHQTDDAIKLQNFNLTSLVNDDEIDFHEFIS----LAPPLINDLAVYK--DFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVS 775
            EEI  +S++ ++N +A  DD+G +K+ D  + + + +   H+NI +SV         ++S G+D ++++        K +   +T+L  D+  +     S    L P L + ++V    +   CG E+  + +F         E  F  H+ GVS
Sbjct:   95 EEINCLSLNQTENLLASADDSGAIKILDLENKKVIRSLKRHSNICSSVAFRPQRPQSLVSCGLDMQVMLW----SLQKARPLWITNLQEDETEEMEGPQSPGQLLNPALAHSISVASCGNIFSCGAEDGKVRIFRVMGVKCEQELGFKGHTSGVS 245
[Close]
BLAST of SMED30028709 vs. TrEMBL
Match: A0A1I8GJF5 (WD_REPEATS_REGION domain-containing protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig023187g1 PE=4 SV=1)

HSP 1 Score: 83.5741 bits (205), Expect = 3.816e-14
Identity = 65/247 (26.32%), Postives = 117/247 (47.37%), Query Frame = 2 
Query:   83 INCVKF-HLKGLII-GKNDGVITLNNFSNIKTDFITFKYK------KPCHSL---SPFNTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVI---RHQTDDAIKLQNFNLTSLVNDDEIDFHEFISLAPPLINDLAVYKD--FIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVS 775
            +NC+   H   L+  G +D  I L +        +T K++       P  SL   SP         +   + +  WD R+P+     I  A  +E+ S+++   +  +A  DD G +K+FD+ S E +   + H NI ++V    + +++V+S GMD  +V+   +    +A+ +  F+++ L + +       I + PPL++ LA   D  F+  G+EN S+++FS     +    S   HS GVS
Sbjct:   17 VNCLALDHDSSLLASGADDAAICLWDAGQ---RLLTAKWQCGGPTGAPVVSLAFSSPGFASGRLLFAAQGSAVHAWDLRSPAQPLLSIC-AAEDEVNSVALLEEERRLATADDTGAVKIFDAVSGELVRALHKHDNIASAVIFRPTRTWQVISGGMDYRLVVTDWKGHRGEAVNI--FDMSELQDAESTVSASGIGVNPPLVHCLAASSDGQFVAAGLENGSVELFSGSGRHLLQSESLYGHSAGVS 257
[Close]
BLAST of SMED30028709 vs. TrEMBL
Match: A0A1I8IQA8 (WD_REPEATS_REGION domain-containing protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig007582g1 PE=4 SV=1)

HSP 1 Score: 83.1889 bits (204), Expect = 5.131e-14
Identity = 65/247 (26.32%), Postives = 117/247 (47.37%), Query Frame = 2 
Query:   83 INCVKF-HLKGLII-GKNDGVITLNNFSNIKTDFITFKYK------KPCHSL---SPFNTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVI---RHQTDDAIKLQNFNLTSLVNDDEIDFHEFISLAPPLINDLAVYKD--FIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVS 775
            +NC+   H   L+  G +D  I L +        +T K++       P  SL   SP         +   + +  WD R+P+     I  A  +E+ S+++   +  +A  DD G +K+FD+ S E +   + H NI ++V    + +++V+S GMD  +V+   +    +A+ +  F+++ L + +       I + PPL++ LA   D  F+  G+EN S+++FS     +    S   HS GVS
Sbjct:   17 VNCLALDHDSSLLASGADDAAICLWDAGQ---RLLTAKWQCGGPAGAPVVSLAFSSPGFASGRLLFAAQGSAVHAWDLRSPAQPLLSIC-AAEDEVNSVALLEEERRLATADDTGAVKIFDAVSGELVRVLHKHDNIASAVIFRPTRTWQVISGGMDYRLVVTDWKSHRGEAVNI--FDMSELQDAESTVSASGIGVNPPLVHCLAASSDGQFVAAGLENGSVELFSGSGRHLLQSESLYGHSAGVS 257
[Close]
BLAST of SMED30028709 vs. TrEMBL
Match: A0A1I8GM61 (WD_REPEATS_REGION domain-containing protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig031563g1 PE=4 SV=1)

HSP 1 Score: 82.0333 bits (201), Expect = 1.010e-13
Identity = 65/247 (26.32%), Postives = 116/247 (46.96%), Query Frame = 2 
Query:   83 INCVKF-HLKGLII-GKNDGVITLNNFSNIKTDFITFKYK------KPCHSL---SPFNTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVI---RHQTDDAIKLQNFNLTSLVNDDEIDFHEFISLAPPLINDLAVYKD--FIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVS 775
            +NC+   H   L+  G +D  I L +        +T K++       P  SL   SP         +   + +  WD R+P+     I  A  +E+ S+++   +  +A  DD G +K+FD+ S E +   + H NI ++V    + ++ V+S GMD  +V+   +    +A+ +  F+++ L + +       I + PPL++ LA   D  F+  G+EN S+++FS     +    S   HS GVS
Sbjct:   17 VNCLALDHDSSLLASGADDAAICLWDAGQ---RLLTAKWQCGGPAGAPVVSLAFSSPGFASGRLLFAAQGSAVHAWDLRSPAQPLLSIC-AAEDEVNSVALLEEERRLATADDTGAVKIFDAVSGELVRALHKHDNIASAVIFRPTRTWHVISGGMDYRLVVTDWKGHRGEAVNI--FDMSELQDAESTVSASGIGVNPPLVHCLAASSDGQFVAAGLENGSVELFSGSGRHLLQSESLYGHSAGVS 257
[Close]
BLAST of SMED30028709 vs. TrEMBL
Match: A0A0R3S9Z9 (WD_REPEATS_REGION domain-containing protein OS=Hymenolepis diminuta OX=6216 PE=4 SV=1)

HSP 1 Score: 73.9442 bits (180), Expect = 9.882e-11
Identity = 63/278 (22.66%), Postives = 124/278 (44.60%), Query Frame = 2 
Query:   83 INCVKFHLKGLIIGKNDG---VITLNNFSNIKTDFITFKYK-KPCHSLSPFNTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIR-----HQTDDAIKLQNF----NLTSLVN-----------------------DDEID-------FHEFISLAPPLINDLAV--YKDFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVSGL 781
            ++C+      L +G  +G   +IT N+ SN     IT  +   PC++L+  +T      S H+ +++ WD RNP+     ++  + +E+ SI +++ D +IA GDD G + +    + +      +H NI +SV    S   +++S+G+D ++VIR      +    I + N      LTSL+N                        +EI          + + L PP+++ +      D++  G+ N ++++F +    + +  S   H   V+ +
Sbjct:  100 VSCLSLSNNSLALGLENGDISIITPNSTSN---SSITLSHSIDPCNALAFSDTSSVILYSAHKGNVIAWDLRNPAMAVFNLQ-VSEDEVNSIDVNMQDGYIATGDDLGLVSLISIANQKVTRVFKSHDNICSSVKFRPSWPNQLISAGLDCQLVIRDWKAGSRNKRKISMTNLIDPRRLTSLLNSGRQGQRESRSDVASIRIASSFSQEEIQRMVSTHALGQDLPLNPPMVHSIGCSNSGDYVVAGLGNGTVELF-HGGKNLRHTESLFGHKRSVAAI 372
[Close]
BLAST of SMED30028709 vs. TrEMBL
Match: A0A3P6WCF6 (WD_REPEATS_REGION domain-containing protein OS=Hymenolepis diminuta OX=6216 GN=HDID_LOCUS1131 PE=4 SV=1)

HSP 1 Score: 73.9442 bits (180), Expect = 9.882e-11
Identity = 63/278 (22.66%), Postives = 124/278 (44.60%), Query Frame = 2 
Query:   83 INCVKFHLKGLIIGKNDG---VITLNNFSNIKTDFITFKYK-KPCHSLSPFNTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIR-----HQTDDAIKLQNF----NLTSLVN-----------------------DDEID-------FHEFISLAPPLINDLAV--YKDFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVSGL 781
            ++C+      L +G  +G   +IT N+ SN     IT  +   PC++L+  +T      S H+ +++ WD RNP+     ++  + +E+ SI +++ D +IA GDD G + +    + +      +H NI +SV    S   +++S+G+D ++VIR      +    I + N      LTSL+N                        +EI          + + L PP+++ +      D++  G+ N ++++F +    + +  S   H   V+ +
Sbjct:  100 VSCLSLSNNSLALGLENGDISIITPNSTSN---SSITLSHSIDPCNALAFSDTSSVILYSAHKGNVIAWDLRNPAMAVFNLQ-VSEDEVNSIDVNMQDGYIATGDDLGLVSLISIANQKVTRVFKSHDNICSSVKFRPSWPNQLISAGLDCQLVIRDWKAGSRNKRKISMTNLIDPRRLTSLLNSGRQGQRESRSDVASIRIASSFSQEEIQRMVSTHALGQDLPLNPPMVHSIGCSNSGDYVVAGLGNGTVELF-HGGKNLRHTESLFGHKRSVAAI 372
[Close]
BLAST of SMED30028709 vs. Ensembl Cavefish
Match: wdr53 (WD repeat domain 53 [Source:NCBI gene;Acc:103022167])

HSP 1 Score: 53.1434 bits (126), Expect = 2.110e-7
Identity = 45/197 (22.84%), Postives = 88/197 (44.67%), Query Frame = 2 
Query:  203 CHSLSPFNTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRHQTDDAIKLQNFNLTSLVNDDEIDFHEFISLA---PPLIN--DLAVYKDFIFCGVENCSIDMFSYDNDGINYENSFVN-HSLGVS 775
            C + SP  T        H   +   D RN +     +K+   +EI S+S++ +   +A+GDD+G ++V D  + +   T   HTNI +SV         ++S+G+D ++++ +    A  +  ++L      +E D H+  +     PPL +    A   + + C  E+  + +    +   + +   +  HS G S
Sbjct:   58 CTAFSP--TAPGLLYVSHGETVSVLDPRNLAGPVEELKNVGEDEINSLSVNETGTSLALGDDSGAVRVLDLQTGKVSRTLRKHTNICSSVSFRPQRPQSLVSAGLDMQVMLWN-LQKARPVWTYSLQEAA--EEEDGHQQRAGQMFNPPLAHCISAASCGNVLACAAEDGRVHLTRVGSGSRHEQQGGIKAHSQGAS 249
[Close]
BLAST of SMED30028709 vs. Ensembl Cavefish
Match: wdr53 (WD repeat domain 53 [Source:NCBI gene;Acc:103022167])

HSP 1 Score: 53.1434 bits (126), Expect = 2.110e-7
Identity = 45/197 (22.84%), Postives = 88/197 (44.67%), Query Frame = 2 
Query:  203 CHSLSPFNTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRHQTDDAIKLQNFNLTSLVNDDEIDFHEFISLA---PPLIN--DLAVYKDFIFCGVENCSIDMFSYDNDGINYENSFVN-HSLGVS 775
            C + SP  T        H   +   D RN +     +K+   +EI S+S++ +   +A+GDD+G ++V D  + +   T   HTNI +SV         ++S+G+D ++++ +    A  +  ++L      +E D H+  +     PPL +    A   + + C  E+  + +    +   + +   +  HS G S
Sbjct:   58 CTAFSP--TAPGLLYVSHGETVSVLDPRNLAGPVEELKNVGEDEINSLSVNETGTSLALGDDSGAVRVLDLQTGKVSRTLRKHTNICSSVSFRPQRPQSLVSAGLDMQVMLWN-LQKARPVWTYSLQEAA--EEEDGHQQRAGQMFNPPLAHCISAASCGNVLACAAEDGRVHLTRVGSGSRHEQQGGIKAHSQGAS 249
[Close]
BLAST of SMED30028709 vs. Ensembl Medaka
Match: wdr53 (WD repeat domain 53 [Source:NCBI gene;Acc:101175495])

HSP 1 Score: 55.4546 bits (132), Expect = 4.149e-8
Identity = 43/186 (23.12%), Postives = 84/186 (45.16%), Query Frame = 2 
Query:  236 NRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRHQTDDAIKLQNFNLTSLVNDDEIDFHEFISLA---PPLIN--DLAVYKDFIFCGVENCSIDMFSYDNDG-INYENSFVNHSLGVS 775
            N+  + H   +   D RN  +     ++A  EEI S++++ + + +AV DD+G ++V +    +   T   HTNI +SV         ++S G+D ++++ +       L   NL     DDE   H+  +     PPL++   +A   + + C  E+  + +    +   +  + +   HS G S
Sbjct:   67 NQLFASHGDTVSVLDPRNLKSSVEDFREAGEEEINSLALNETGSALAVADDSGAVRVLEIPGGKVCRTLRRHTNICSSVAFRPHRPNNLVSVGLDMQVMLWN-LQKTRPLWTLNLQDAAEDDE-GLHQQPAGQLFNPPLVHCVTVASCGNVLGCASEDGRVHVMRIGSGSKLEQQGALKAHSQGAS 250
[Close]
BLAST of SMED30028709 vs. Planmine SMEST
Match: SMESG000035966.1 (SMESG000035966.1)

HSP 1 Score: 487.649 bits (1254), Expect = 3.007e-174
Identity = 240/240 (100.00%), Postives = 240/240 (100.00%), Query Frame = 2 
Query:   74 MEDINCVKFHLKGLIIGKNDGVITLNNFSNIKTDFITFKYKKPCHSLSPFNTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRHQTDDAIKLQNFNLTSLVNDDEIDFHEFISLAPPLINDLAVYKDFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVSGLQGTE 793
            MEDINCVKFHLKGLIIGKNDGVITLNNFSNIKTDFITFKYKKPCHSLSPFNTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRHQTDDAIKLQNFNLTSLVNDDEIDFHEFISLAPPLINDLAVYKDFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVSGLQGTE
Sbjct:    1 MEDINCVKFHLKGLIIGKNDGVITLNNFSNIKTDFITFKYKKPCHSLSPFNTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFIAVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDSEIVIRHQTDDAIKLQNFNLTSLVNDDEIDFHEFISLAPPLINDLAVYKDFIFCGVENCSIDMFSYDNDGINYENSFVNHSLGVSGLQGTE 240
The following BLAST results are available for this feature:
BLAST of SMED30028709 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 1
Match NameE-valueIdentityDescription
WDR533.408e-724.52WD repeat domain 53 [Source:HGNC Symbol;Acc:HGNC:2... [more]
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BLAST of SMED30028709 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028709 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028709 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028709 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 1
Match NameE-valueIdentityDescription
cables21.866e-928.39Cdk5 and Abl enzyme substrate 2 [Source:Xenbase;Ac... [more]
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BLAST of SMED30028709 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 3
Match NameE-valueIdentityDescription
Wdr531.138e-623.57WD repeat domain 53 [Source:MGI Symbol;Acc:MGI:191... [more]
Wdr531.138e-623.57WD repeat domain 53 [Source:MGI Symbol;Acc:MGI:191... [more]
Wdr531.229e-623.42WD repeat domain 53 [Source:MGI Symbol;Acc:MGI:191... [more]
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BLAST of SMED30028709 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 2
Match NameE-valueIdentityDescription
sp|Q32KQ2|WDR53_BOVIN7.246e-725.81WD repeat-containing protein 53 OS=Bos taurus OX=9... [more]
sp|Q7Z5U6|WDR53_HUMAN1.637e-624.52WD repeat-containing protein 53 OS=Homo sapiens OX... [more]
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BLAST of SMED30028709 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A1I8GJF53.816e-1426.32WD_REPEATS_REGION domain-containing protein OS=Mac... [more]
A0A1I8IQA85.131e-1426.32WD_REPEATS_REGION domain-containing protein OS=Mac... [more]
A0A1I8GM611.010e-1326.32WD_REPEATS_REGION domain-containing protein OS=Mac... [more]
A0A0R3S9Z99.882e-1122.66WD_REPEATS_REGION domain-containing protein OS=Hym... [more]
A0A3P6WCF69.882e-1122.66WD_REPEATS_REGION domain-containing protein OS=Hym... [more]
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BLAST of SMED30028709 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
wdr532.110e-722.84WD repeat domain 53 [Source:NCBI gene;Acc:10302216... [more]
wdr532.110e-722.84WD repeat domain 53 [Source:NCBI gene;Acc:10302216... [more]
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BLAST of SMED30028709 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028709 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028709 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028709 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
wdr534.149e-823.12WD repeat domain 53 [Source:NCBI gene;Acc:10117549... [more]
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BLAST of SMED30028709 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000035966.13.007e-174100.00SMESG000035966.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30028709 ID=SMED30028709|Name=SMED30028709|organism=Schmidtea mediterranea sexual|type=transcript|length=1128bp
CATTTTTATTTTTTAACCTAATTTTAAATTTAAATTATTTTGTTATTTAT
TAATATTTTTTATACTTATATTAATGGAGGACATAAATTGTGTCAAATTT
CATTTAAAAGGTTTAATAATTGGTAAGAATGATGGTGTTATTACATTAAA
TAATTTTTCAAATATTAAAACTGATTTTATTACTTTTAAATACAAAAAAC
CATGTCATTCTTTATCGCCATTTAATACTGATGATAATAGATTTGTGTCG
GTTCACCAAGCGGATATTGTTTATTGGGATACTAGAAATCCTTCAACATG
GACTTCTATAATTAAAGATGCTACAAATGAAGAAATTGGTTCTATCAGTA
TTGATTTATCTGATAATTTCATTGCAGTTGGTGATGATAATGGCTGTCTT
AAAGTATTTGACAGTTTTTCCTATGAAACCTTGTATACTGACAATGCTCA
TACTAATATAATTACCTCTGTTCACATGTTGGAGTCATCTTCATTTAAAG
TTCTATCGTCTGGCATGGATTCAGAAATTGTAATACGGCATCAAACAGAT
GATGCCATAAAATTACAAAATTTTAATTTAACTTCATTGGTAAATGACGA
TGAAATTGATTTCCACGAATTTATTTCACTCGCTCCTCCACTTATTAATG
ATTTGGCGGTGTACAAAGATTTTATTTTCTGTGGAGTTGAAAATTGTTCC
ATTGACATGTTTAGCTATGACAATGATGGCATAAATTATGAAAATAGTTT
TGTTAATCATTCACTTGGAGTTTCCGGTTTGCAGGGGACTGAGGTAAATT
GAATTTGTGCTATATATCGGTTGAATACGTATTAAAGCGACTAGCAAAAT
AGACGGCTAATGTTGACTAGCGTCTCATATGTAGGGGAAATTATCTGAGT
GAACTCGAGTGTAAGCGCACGCGTTAACTGGCGTTCCTCGAAAACTCATA
AGAAAGAGCAATTGCATGTAGAAAGCTACCAGTAAAAATTTGCTACTAGG
TAAATGTGAGTCCCATTGACCACTCTGAGTTATTGGGCACCGTGTAAGGT
GTTATCGCGCAGTCATCTTTACATGCCAAAATCGCAATTTCTGATTATTT
TTTGGTTATACTTCATATTTTGTCCAGG
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protein sequence of SMED30028709-orf-1

>SMED30028709-orf-1 ID=SMED30028709-orf-1|Name=SMED30028709-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=243bp
MEDINCVKFHLKGLIIGKNDGVITLNNFSNIKTDFITFKYKKPCHSLSPF
NTDDNRFVSVHQADIVYWDTRNPSTWTSIIKDATNEEIGSISIDLSDNFI
AVGDDNGCLKVFDSFSYETLYTDNAHTNIITSVHMLESSSFKVLSSGMDS
EIVIRHQTDDAIKLQNFNLTSLVNDDEIDFHEFISLAPPLINDLAVYKDF
IFCGVENCSIDMFSYDNDGINYENSFVNHSLGVSGLQGTEVN*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0002109X1 cell
PLANA:0002111X2 cell
Vocabulary: INTERPRO
TermDefinition
IPR042453WDR53
IPR036322WD40_repeat_dom_sf
IPR015943WD40/YVTN_repeat-like_dom_sf
IPR017986WD40_repeat_dom
Vocabulary: molecular function
TermDefinition
GO:0005515protein binding
Vocabulary: cellular component
TermDefinition
GO:0005737cytoplasm
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR015943WD40/YVTN repeat-like-containing domain superfamilyGENE3DG3DSA:2.130.10.10coord: 1..234
e-value: 2.3E-13
score: 51.5
IPR042453WD repeat-containing protein 53PANTHERPTHR44666FAMILY NOT NAMEDcoord: 4..236
IPR036322WD40-repeat-containing domain superfamilySUPERFAMILYSSF50978WD40 repeat-likecoord: 3..221