Family GP001239


Family ID GP001239  add to my list RDF
Family name Dormancy/auxin associated family   suggest a name
Cross-reference(s) PMID:
Dormancy-associated gene expression in pea axillary buds. Cloning and expression of PsDRM1 and PsDRM2.
9684359
Family Ontology
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N/A
Curation status ?
Found in Viridiplantae
Phylogenetic analyzes Phylogeny done




Clustering level Family ID (number of sequences)
1
Dormancy/auxin associated family (plant-specificity: 95%)
GP001239 (343)
2 GP016997 (173) , GP018491 (102) ,
(plant-specificity: 28%)
GP020111 (65) , GP029412 (3)
3 GP041698 (173) , GP043206 (102) ,
(plant-specificity: 28%)
GP045068 (65) , GP056576 (3)
4 GP071098 (163) , GP072714 (96) , GP074689 (65) , GP134995 (10) , GP137898 (6) , GP088611 (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: 343
Species Count (w/o splice) Count (w/ splice)
1 1
5 10
5 5
12 12
6 6
11 11
6 6
7 7
1 1
5 16
6 9
5 5
6 6
8 19
5 7
5 5
5 5
5 5
4 4
6 18
4 4
26 26
9 20
3 3
6 25
4 4
19 19
8 15
8 8
4 4
5 10
4 4
5 7
10 31
5 5


Information to display




(click on chart bars above to get species proteins)


Close InterPro family
IPR Annotation Type % Occurence Specificity
Dormancyauxin associated
IPR008406
Dormancyauxin associated Family 77 (263) No

Close Other InterPro signatures

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


Close Domain architecture
Clustering
 



Close Representative InterPro domains - Consensus schema
IPR008406


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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
343 234 (68%) 229 (67%) [55; 129; 369] ~157 819 60


Phylogenomic tree statistics:

Overall family sequences Sequences used for phylogeny (w/o splice and filtered seq.) Average branch length Median branch length Standard deviation
343 229 (67%) 1.76959 1.32345 1.13232



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Species



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