Family GP003007


Family ID GP003007  add to my list RDF
Family name Nozzle transcription factor family   suggest a name
Cross-reference(s) PMID:
NOZZLE links proximal-distal and adaxial-abaxial pattern formation during ovule development in Arabidopsis thaliana.
12183381 PMID:
Arabidopsis transcription factors and the regulation of flowering time: a genomic perspective.
12074197
Curation status ?
Found in Mesangiospermae plant-specific
Phylogenetic analyzes Phylogeny done




Clustering level Family ID (number of sequences)
1
Nozzle transcription factor family (plant-specificity: 100%)
GP003007 (80)
2
(plant-specificity: 100%)
GP021160 (77) , GP116532 (3)
3
(plant-specificity: 100%)
GP046216 (58) ,
(plant-specificity: 100%)
GP049626 (13) ,
(plant-specificity: 100%)
GP054581 (6) , GP129426 (3)
4
(plant-specificity: 100%)
GP075895 (54) ,
(plant-specificity: 100%)
GP079935 (13) , GP145346 (3) , GP145878 (3) , GP145920 (3) , GP146240 (3)
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: 80
Species Count (w/o splice) Count (w/ splice)
3 3
3 3
2 2
1 1
3 3
3 3
2 2
5 5
5 6
3 3
1 1
2 2
2 2
1 1
2 3
1 1
1 1
4 6
1 1
2 2
2 2
3 3
2 3
2 2
1 1
2 2
2 2
3 4
4 8
2 2


Information to display




(click on chart bars above to get species proteins)


Close InterPro family

No IPR family


Close Other InterPro signatures

No other significant IPR (i.e. > 25%)


Close Domain architecture
Clustering
 



Close Representative InterPro domains - Consensus schema



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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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Species




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
80 70 (88%) 63 (79%) [45; 188; 457] ~174 655 133


Phylogenomic tree statistics:

Overall family sequences Sequences used for phylogeny (w/o splice and filtered seq.) Average branch length Median branch length Standard deviation
80 63 (79%) 0.899919 0.696179 0.338225



for (default: all):
Species



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