Family GP002203


Family ID GP002203  add to my list RDF
Family name Whirly transcription factor family   suggest a name
Synonym(s) PBF-2-like
Cross-reference(s) PMID:
Whirly transcription factors: defense gene regulation and beyond.
15708347 PMID:
PBF-2 is a novel single-stranded DNA binding factor implicated in PR-10a gene activation in potato.
10948264 PMID:
A new family of plant transcription factors displays a novel ssDNA-binding surface.
12080340
Curation status ?
Found in Viridiplantae
Phylogenetic analyzes Phylogeny done




Clustering level Family ID (number of sequences)
1
Whirly transcription factor family (plant-specificity: 92%)
GP002203 (120)
2 GP017775 (120)
3 GP042457 (120)
4 GP071898 (120)
Table 1: This table displays which relationship has the selected family with other families in GreenPhyl clustering ?.




Legend:
  • Families (clustering)
    • Sequences are clustered and classified at 4 levels (from less to more stringent).
    • The number between parenthesis indicates the number of sequences in the cluster.
    • Selected family is highlighted like this.
    • Annotated gene families are underlined and gene family name pops up when you move your mouse cursor over.
    • Gene families are coloured in this color when the phylogenetic analyses are available.


Sequence total: 120
Species Count (w/o splice) Count (w/ splice)
1 1
1 1
1 1
4 4
2 2
3 3
2 2
2 2
2 2
2 2
2 2
2 2
2 6
2 2
3 3
3 3
2 2
2 2
3 4
2 2
9 9
2 15
2 2
3 6
2 2
3 3
2 3
3 3
3 3
4 4
2 2
3 4
7 13
3 3


Information to display




(click on chart bars above to get species proteins)


Close InterPro family
IPR Annotation Type % Occurence Specificity
Plant transcription factor
IPR013742
Plant transcription factor Family 95 (114) No

Close Other InterPro signatures
IPR Annotation Type % Occurence Specificity
ssDNA-binding transcriptional regulator
IPR009044
ssDNA-binding transcriptional regulator Domain 97 (116) No

Close Domain architecture
Clustering
 



Close Representative InterPro domains - Consensus schema
IPR009044 IPR013742


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Species
Information to display
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[Masking step 1 details] [Masking step 2 details] [Filtration details] [Global HMM file]

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Alignment and filtration statistics:

Overall family sequences Sequences used for alignment (w/o splice) Sequences kept after filtration [min; median; max] ~average sequence length Alignment length Masked alignment length
120 91 (76%) 85 (71%) [63; 234; 402] ~226 727 170


Phylogenomic tree statistics:

Overall family sequences Sequences used for phylogeny (w/o splice and filtered seq.) Average branch length Median branch length Standard deviation
120 85 (71%) 0.951765 0.917496 0.323659



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