Family GP001760


Family ID GP001760  add to my list RDF
Family name TIME FOR COFFEE homolog family   suggest a name
Synonym(s) Circadian clock
Cross-reference(s) PMID:
The TIME FOR COFFEE gene maintains the amplitude and timing of Arabidopsis circadian clocks.
14555691 PMID:
TIME FOR COFFEE encodes a nuclear regulator in the Arabidopsis thaliana circadian clock.
17496120
Curation status ?
Found in Plant-specific plant-specific
Phylogenetic analyzes Did not pass filtration




Clustering level Family ID (number of sequences)
1
TIME FOR COFFEE homolog family (plant-specificity: 100%)
GP001760 (169)
2 GP017190 (149) ,
(plant-specificity: 100%)
GP025527 (13) , GP116444 (3) , GP030388 (3)
3 GP041842 (149) , GP051616 (10) , GP055332 (4) , GP128562 (3) , GP129279 (3) , GP057952 (3)
4 GP071257 (149) ,
(plant-specificity: 100%)
GP082428 (10) , GP087184 (4) , GP144912 (3) , GP146026 (3) , GP090594 (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: 169
Species Count (w/o splice) Count (w/ splice)
1 1
6 9
1 1
6 6
2 2
4 4
4 4
9 9
5 5
1 3
1 1
4 4
1 1
1 3
1 1
1 1
1 1
1 1
3 3
2 4
2 2
16 16
3 15
2 2
7 14
2 2
5 5
2 8
18 18
5 5
3 3
2 2
3 3
6 8
2 2


Information to display




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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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Alignment not available.
[Masking step 1 details] [Masking step 2 details] [Filtration details] [Global HMM file]

Phylogeny tree not available.


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
169 133 (79%) 93 (55%) [57; 1295; 2319] ~1149 3721 776