Family GP001341


Family ID GP001341  add to my list RDF
Family name Endoplasmic reticulum retrieval family   suggest a name
Synonym(s) Rer1
Cross-reference(s) PMID:
The Arabidopsis thaliana RER1 gene family: its potential role in the endoplasmic reticulum localization of membrane proteins.
10737146
Curation status ?
Found in No specificity
Phylogenetic analyzes Phylogeny done




Clustering level Family ID (number of sequences)
1
Endoplasmic reticulum retrieval family
GP001341 (213)
2 GP016590 (213)
3 GP041204 (213)
4 GP070608 (213)
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: 213
Species Count (w/o splice) Count (w/ splice)
1 1
2 2
9 9
3 3
2 2
15 15
2 2
6 6
5 5
6 6
1 1
3 3
3 3
4 4
2 2
4 5
2 2
2 2
3 3
3 3
4 4
4 6
3 3
12 12
8 25
4 4
7 18
4 4
9 9
2 5
9 9
4 4
3 3
3 3
4 7
8 12
6 6


Information to display




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Close InterPro family
IPR Annotation Type % Occurence Specificity
Retrieval of early ER protein Rer1
IPR004932
Retrieval of early ER protein Rer1 Family 96 (205) Yes

Close Other InterPro signatures

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


Close Domain architecture
Clustering
 



Close Representative InterPro domains - Consensus schema
IPR004932


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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
213 171 (80%) 158 (74%) [40; 195; 337] ~183 578 174


Phylogenomic tree statistics:

Overall family sequences Sequences used for phylogeny (w/o splice and filtered seq.) Average branch length Median branch length Standard deviation
213 158 (74%) 0.583375 0.525147 0.144937



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