BTB domain-containing protein

Overview
NameBTB domain-containing protein
Smed IDSMED30009176
Length (bp)1529
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 BTB domain-containing protein (SMED30009176) t-SNE clustered cells

Violin plots show distribution of expression levels for BTB domain-containing protein (SMED30009176) 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 BTB domain-containing protein (SMED30009176) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for BTB domain-containing protein (SMED30009176) 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




SMED30009176

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



PAGE Curations: 1

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
protonephridiaSMED30009176h1SMcG0010841 dd_Smed_v4_7429_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
BLAST of BTB domain-containing protein vs. TrEMBL
Match: A0A2A6B7M6 (BTB And C-terminal Kelch domain containing protein OS=Pristionchus pacificus OX=54126 GN=PRIPAC_51318 PE=4 SV=1)

HSP 1 Score: 62.3882 bits (150), Expect = 1.220e-6
Identity = 38/118 (32.20%), Postives = 59/118 (50.00%), Query Frame = 3
Query:  186 IVKQFNNENTSDVKVILGEEGDGDSTSNNRQILHLHKIVLSSASLMFATWVNKYSHNVNG-----TILRIPENFSWMPDFFRFFYTGHIMMTSENLVDIYTIADKYLVESLKIQCEDY 524
            + K +NN + SDV ++LG+           QI   H+++L+  S +F       S   NG     +I+  P    + P F RF Y  H+++  EN++ I  +ADKY V SLK  C +Y
Sbjct:   38 LAKYYNNAHLSDVNLVLGD-----------QIYASHRLILAKGSEVFD---RMLSQRWNGEEKDVSIVEDPSTIRYFPSFLRFLYCNHVVLHHENVLPILILADKYNVASLKRVCVEY 141          
BLAST of BTB domain-containing protein vs. TrEMBL
Match: A0A4X3NUD4 (BTB And C-terminal Kelch domain containing protein OS=Pristionchus pacificus OX=54126 GN=WBGene00206010 PE=4 SV=1)

HSP 1 Score: 62.3882 bits (150), Expect = 1.220e-6
Identity = 38/118 (32.20%), Postives = 59/118 (50.00%), Query Frame = 3
Query:  186 IVKQFNNENTSDVKVILGEEGDGDSTSNNRQILHLHKIVLSSASLMFATWVNKYSHNVNG-----TILRIPENFSWMPDFFRFFYTGHIMMTSENLVDIYTIADKYLVESLKIQCEDY 524
            + K +NN + SDV ++LG+           QI   H+++L+  S +F       S   NG     +I+  P    + P F RF Y  H+++  EN++ I  +ADKY V SLK  C +Y
Sbjct:   38 LAKYYNNAHLSDVNLVLGD-----------QIYASHRLILAKGSEVFD---RMLSQRWNGEEKDVSIVEDPSTIRYFPSFLRFLYCNHVVLHHENVLPILILADKYNVASLKRVCVEY 141          
BLAST of BTB domain-containing protein vs. TrEMBL
Match: A0A2A6B970 (BTB And C-terminal Kelch domain containing protein OS=Pristionchus pacificus OX=54126 GN=PRIPAC_51860 PE=4 SV=1)

HSP 1 Score: 62.3882 bits (150), Expect = 1.230e-6
Identity = 38/118 (32.20%), Postives = 59/118 (50.00%), Query Frame = 3
Query:  186 IVKQFNNENTSDVKVILGEEGDGDSTSNNRQILHLHKIVLSSASLMFATWVNKYSHNVNG-----TILRIPENFSWMPDFFRFFYTGHIMMTSENLVDIYTIADKYLVESLKIQCEDY 524
            + K +NN + SDV ++LG+           QI   H+++L+  S +F       S   NG     +I+  P    + P F RF Y  H+++  EN++ I  +ADKY V SLK  C +Y
Sbjct:   38 LAKYYNNAHLSDVNLVLGD-----------QIYASHRLILAKGSEVFD---RMLSQRWNGEEKDVSIVEDPSTIRYFPSFLRFLYCNHVVLHHENVLPILILADKYNVASLKRVCVEY 141          
BLAST of BTB domain-containing protein vs. TrEMBL
Match: A0A4X3NY89 (BTB And C-terminal Kelch domain containing protein OS=Pristionchus pacificus OX=54126 GN=WBGene00273949 PE=4 SV=1)

HSP 1 Score: 62.3882 bits (150), Expect = 1.230e-6
Identity = 38/118 (32.20%), Postives = 59/118 (50.00%), Query Frame = 3
Query:  186 IVKQFNNENTSDVKVILGEEGDGDSTSNNRQILHLHKIVLSSASLMFATWVNKYSHNVNG-----TILRIPENFSWMPDFFRFFYTGHIMMTSENLVDIYTIADKYLVESLKIQCEDY 524
            + K +NN + SDV ++LG+           QI   H+++L+  S +F       S   NG     +I+  P    + P F RF Y  H+++  EN++ I  +ADKY V SLK  C +Y
Sbjct:   38 LAKYYNNAHLSDVNLVLGD-----------QIYASHRLILAKGSEVFD---RMLSQRWNGEEKDVSIVEDPSTIRYFPSFLRFLYCNHVVLHHENVLPILILADKYNVASLKRVCVEY 141          
BLAST of BTB domain-containing protein vs. Planmine SMEST
Match: SMESG000061081.1 (SMESG000061081.1)

HSP 1 Score: 917.531 bits (2370), Expect = 0.000e+0
Identity = 474/474 (100.00%), Postives = 474/474 (100.00%), Query Frame = 3
Query:   90 MDSDEELSVKRIKFMNPYVQLNKAFIIKATPSIVKQFNNENTSDVKVILGEEGDGDSTSNNRQILHLHKIVLSSASLMFATWVNKYSHNVNGTILRIPENFSWMPDFFRFFYTGHIMMTSENLVDIYTIADKYLVESLKIQCEDYXXXXXXXXXXXXTCPHLKSILSKCPDQDSCSTGNSDSLPFFDPYQSLLRTRSGYSNQSGANIFSNFNQLSKNINSRNMPIQHGXXXXXXXXXXXXXXXXXRSFYDVFEKKNSDFDISNSKMDLFCDKCNPGPVTVSRILAFPTVVHLTQMTCNAELTKLAKYNLMIRLTEELRSEDYSQFIQLPFQLLHELLEDDNFYCSEFHLFCAIQHWIQSNKLVDNSKSFFPHSSDDLTKSADKPSDPMKSQADKLISLIRFPVMSAEELYDAESSAASSGHFSDFLLQNLLHQALRYMVYRNVQKAKMEESWIGIPYKPRVPVEIIKLGMQSLA 1511
            MDSDEELSVKRIKFMNPYVQLNKAFIIKATPSIVKQFNNENTSDVKVILGEEGDGDSTSNNRQILHLHKIVLSSASLMFATWVNKYSHNVNGTILRIPENFSWMPDFFRFFYTGHIMMTSENLVDIYTIADKYLVESLKIQCEDYIKESLKIKIEKITCPHLKSILSKCPDQDSCSTGNSDSLPFFDPYQSLLRTRSGYSNQSGANIFSNFNQLSKNINSRNMPIQHGNSISIFNSNTNSKNIFSRSFYDVFEKKNSDFDISNSKMDLFCDKCNPGPVTVSRILAFPTVVHLTQMTCNAELTKLAKYNLMIRLTEELRSEDYSQFIQLPFQLLHELLEDDNFYCSEFHLFCAIQHWIQSNKLVDNSKSFFPHSSDDLTKSADKPSDPMKSQADKLISLIRFPVMSAEELYDAESSAASSGHFSDFLLQNLLHQALRYMVYRNVQKAKMEESWIGIPYKPRVPVEIIKLGMQSLA
Sbjct:    1 MDSDEELSVKRIKFMNPYVQLNKAFIIKATPSIVKQFNNENTSDVKVILGEEGDGDSTSNNRQILHLHKIVLSSASLMFATWVNKYSHNVNGTILRIPENFSWMPDFFRFFYTGHIMMTSENLVDIYTIADKYLVESLKIQCEDYIKESLKIKIEKITCPHLKSILSKCPDQDSCSTGNSDSLPFFDPYQSLLRTRSGYSNQSGANIFSNFNQLSKNINSRNMPIQHGNSISIFNSNTNSKNIFSRSFYDVFEKKNSDFDISNSKMDLFCDKCNPGPVTVSRILAFPTVVHLTQMTCNAELTKLAKYNLMIRLTEELRSEDYSQFIQLPFQLLHELLEDDNFYCSEFHLFCAIQHWIQSNKLVDNSKSFFPHSSDDLTKSADKPSDPMKSQADKLISLIRFPVMSAEELYDAESSAASSGHFSDFLLQNLLHQALRYMVYRNVQKAKMEESWIGIPYKPRVPVEIIKLGMQSLA 474          
The following BLAST results are available for this feature:
BLAST of BTB domain-containing protein vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of BTB domain-containing protein 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 BTB domain-containing protein 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 BTB domain-containing protein 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 BTB domain-containing protein vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of BTB domain-containing protein vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of BTB domain-containing protein vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of BTB domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 4
Match NameE-valueIdentityDescription
A0A2A6B7M61.220e-632.20BTB And C-terminal Kelch domain containing protein... [more]
A0A4X3NUD41.220e-632.20BTB And C-terminal Kelch domain containing protein... [more]
A0A2A6B9701.230e-632.20BTB And C-terminal Kelch domain containing protein... [more]
A0A4X3NY891.230e-632.20BTB And C-terminal Kelch domain containing protein... [more]
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BLAST of BTB domain-containing protein vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of BTB domain-containing protein 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 BTB domain-containing protein 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 BTB domain-containing protein 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 BTB domain-containing protein vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of BTB domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000061081.10.000e+0100.00SMESG000061081.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30009176 ID=SMED30009176|Name=BTB domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=1529bp
CAAATCTTTTATAATTCTTAAATTATTTAGACAATATATTTTAAAATTTT
ATCATCAATTGCTTAGCGTAATTCAAGTGCATTGTGAATATGGATTCTGA
TGAAGAGTTATCAGTAAAAAGAATAAAATTCATGAATCCTTATGTTCAAT
TAAATAAAGCATTTATTATCAAAGCTACTCCCAGTATTGTTAAACAATTT
AACAATGAAAACACGTCTGATGTTAAGGTTATTCTAGGTGAAGAAGGTGA
TGGTGATTCAACTTCAAACAATCGTCAAATTTTACATTTGCATAAAATTG
TGCTTTCAAGTGCAAGTCTTATGTTTGCTACATGGGTTAACAAATATTCA
CATAATGTCAATGGTACCATTTTAAGAATACCAGAGAATTTTTCATGGAT
GCCAGATTTTTTCAGATTTTTTTATACTGGCCATATAATGATGACTAGTG
AAAATTTAGTTGACATCTATACAATTGCAGATAAATATTTAGTTGAGTCT
CTTAAAATACAATGTGAGGATTATATAAAAGAAAGCTTAAAAATTAAAAT
TGAAAAAATTACGTGTCCACACCTTAAATCAATCCTATCTAAATGTCCTG
ATCAAGATTCTTGCTCAACTGGAAATTCAGATTCTCTTCCATTTTTCGAT
CCATATCAATCTTTGCTTCGAACTCGTTCAGGATACTCAAATCAATCTGG
AGCTAACATCTTTTCCAATTTTAATCAATTGTCTAAAAATATTAATTCTC
GCAACATGCCAATCCAGCATGGAAATTCAATTAGCATTTTCAACTCCAAC
ACAAATTCAAAAAATATTTTCTCTCGATCTTTTTATGATGTTTTTGAGAA
GAAAAATTCCGATTTTGATATTTCTAATTCAAAGATGGACTTATTTTGTG
ATAAATGTAATCCCGGCCCGGTGACAGTTAGTAGGATTTTGGCGTTTCCC
ACTGTAGTGCATTTGACACAAATGACCTGTAACGCTGAATTGACTAAATT
GGCTAAGTATAATCTCATGATCCGATTAACTGAGGAGCTTCGATCCGAAG
ATTATTCGCAGTTTATTCAATTGCCTTTTCAGTTATTACACGAACTACTT
GAAGATGATAATTTCTATTGCTCGGAATTCCATTTATTTTGCGCAATTCA
GCACTGGATTCAGTCGAATAAACTTGTGGATAATTCGAAATCTTTTTTCC
CTCACAGCTCTGATGATTTGACAAAATCTGCTGATAAACCTTCTGACCCT
ATGAAATCTCAAGCCGATAAATTGATTTCTCTGATTCGGTTTCCCGTGAT
GTCCGCCGAAGAGCTCTATGATGCCGAATCGAGTGCGGCGTCCAGTGGAC
ATTTTTCAGATTTTCTATTGCAGAATCTGTTACATCAAGCCCTTCGATAC
ATGGTGTACAGAAACGTGCAAAAAGCGAAAATGGAAGAATCTTGGATAGG
AATACCCTACAAGCCGAGAGTTCCAGTTGAAATCATCAAATTGGGAATGC
AATCTCTAGCCTGATGAATGTGTGACAGA
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protein sequence of SMED30009176-orf-1

>SMED30009176-orf-1 ID=SMED30009176-orf-1|Name=SMED30009176-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=475bp
MDSDEELSVKRIKFMNPYVQLNKAFIIKATPSIVKQFNNENTSDVKVILG
EEGDGDSTSNNRQILHLHKIVLSSASLMFATWVNKYSHNVNGTILRIPEN
FSWMPDFFRFFYTGHIMMTSENLVDIYTIADKYLVESLKIQCEDYIKESL
KIKIEKITCPHLKSILSKCPDQDSCSTGNSDSLPFFDPYQSLLRTRSGYS
NQSGANIFSNFNQLSKNINSRNMPIQHGNSISIFNSNTNSKNIFSRSFYD
VFEKKNSDFDISNSKMDLFCDKCNPGPVTVSRILAFPTVVHLTQMTCNAE
LTKLAKYNLMIRLTEELRSEDYSQFIQLPFQLLHELLEDDNFYCSEFHLF
CAIQHWIQSNKLVDNSKSFFPHSSDDLTKSADKPSDPMKSQADKLISLIR
FPVMSAEELYDAESSAASSGHFSDFLLQNLLHQALRYMVYRNVQKAKMEE
SWIGIPYKPRVPVEIIKLGMQSLA*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000020protonephridia
Vocabulary: INTERPRO
TermDefinition
IPR034091BTBD9_BACK-like_dom
IPR019774Aromatic-AA_hydroxylase_C
IPR000210BTB/POZ_dom
IPR011705BACK
IPR011333SKP1/BTB/POZ_sf
Vocabulary: molecular function
TermDefinition
GO:0005515protein binding
GO:0016714oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced pteridine as one donor, and incorporation of one atom of oxygen
Vocabulary: biological process
TermDefinition
GO:0055114oxidation-reduction process
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR011705BTB/Kelch-associatedSMARTSM00875BACK_2coord: 289..413
e-value: 0.0031
score: 26.8
IPR000210BTB/POZ domainSMARTSM00225BTB_4coord: 43..150
e-value: 3.0E-11
score: 53.4
IPR000210BTB/POZ domainPFAMPF00651BTBcoord: 35..149
e-value: 2.4E-12
score: 47.1
IPR000210BTB/POZ domainPROSITEPS50097BTBcoord: 43..120
score: 10.137
NoneNo IPR availableGENE3DG3DSA:3.30.710.10coord: 28..169
e-value: 2.5E-16
score: 61.8
NoneNo IPR availablePANTHERPTHR24410:SF23HL07962Pcoord: 30..425
NoneNo IPR availablePANTHERPTHR24410FAMILY NOT NAMEDcoord: 30..425
NoneNo IPR availableCDDcd18292BTB_POZ_BTBD17coord: 32..145
e-value: 1.7745E-15
score: 70.3924
IPR034091BTBD9, BACK-like domainCDDcd14822BACK_BTBD9coord: 314..409
e-value: 2.14323E-4
score: 38.3628
IPR011333SKP1/BTB/POZ domain superfamilySUPERFAMILYSSF54695POZ domaincoord: 29..149