Gene family  

Sub-families
ORTHO000933 (44 genes in 21 species)
ORTHO045309 (2 genes in 2 species)
ORTHO073790 (2 genes in 2 species)
View all sub-families (3)
 
Keywords


Overview of gene family content




aly
Arabidopsis lyrata (8 genes)
ath
Arabidopsis thaliana (6 genes)
bdi
Brachypodium distachyon (2 genes)
cpa
Carica papaya (4 genes)
cre
Chlamydomonas reinhardtii (1 gene)
fve
Fragaria vesca (3 genes)
gma
Glycine max (3 genes)
lja
Lotus japonicus (7 genes)
mdo
Malus domestica (2 genes)
mes
Manihot esculenta (2 genes)
mtr
Medicago truncatula (2 genes)
osa
Oryza sativa ssp. japonica (2 genes)
osaindica
Oryza sativa ssp. indica (3 genes)
ppa
Physcomitrella patens (2 genes)
ptr
Populus trichocarpa (2 genes)
rco
Ricinus communis (4 genes)
sbi
Sorghum bicolor (2 genes)
smo
Selaginella moellendorffii (3 genes)
tca
Theobroma cacao (3 genes)
vvi
Vitis vinifera (2 genes)
zma
Zea mays (3 genes)



The gene family HOM001852 has 66 genes in 21 species (3 outlier genes).
Smallest encompassing phylogenetic clade for this gene family :
Tandem/block/both gene duplicate percentage within this gene family :
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Index of genes with 1 constraints:

Page 1 of 4, showing 20 records out of 66 total, starting on record 1, ending on 20

gene_id species description comment strand chr outlier
AL1G49690 aly name=scaffold_105298.1;pid=892504;prot=eq;tid=924017 + scaffold_1 Yes
AL2G08150 aly name=fgenesh1_pm.C_scaffold_2000469;pid=315436;prot=eq;tid=315436 + scaffold_2 No
AL2G08190 aly name=fgenesh1_pg.C_scaffold_2000625;pid=338526;prot=eq;tid=338526 - scaffold_2 No
AL2G08210 aly name=scaffold_200828.1;pid=893754;prot=eq;tid=925267 - scaffold_2 No
AL2G08230 aly name=scaffold_200829.1;pid=893755;prot=eq;tid=925268 - scaffold_2 Yes
AL2G12920 aly name=Al_scaffold_0002_1164;pid=876570;prot=eq;tid=908083 - scaffold_2 No
AL2G12930 aly name=Al_scaffold_0002_1165;pid=876571;prot=eq;tid=908084 + scaffold_2 No
AL6G30840 aly name=fgenesh2_kg.6__2896__AT4G08590.1;pid=489762;prot=eq;tid=489762 + scaffold_6 No
AT1G57800 ath predicted to encode a protein with an N-terminal PHD domain and two RING domains surrounding an SRA domain. Attempts to isolate ORTH3/VIM5 cDNA through RT-PCR were unsuccessful and only one Arabidopsis EST is associated with this locus.;zinc finger (C3HC4-type RING finger) family protein transcript=eq;prot=eq; - 1 No
AT1G57820 ath Encodes a 645-amino acid methylcytosine-binding protein with a PHD domain, two RING finger domains, and an SRA domain that is involved in centromere heterochromatinization. This protein functions as an E3 ubiquitin ligase in vitro. The protein has been shown to bind to methylated cytosines of CG, CNG and CNN motifs via its SRA domain but has a preference for the former. It plays a role in the establishment/maintenance of chromatin structure during cell division and is localized in the nucleus. Plants over-expressing VIM1/ORTH2 show an inhibition in root growth and a delay in flowering. Both over-expression of GFP:ORTH2 and loss of ORTH2/VIM1 lead to decreased levels of DNA methylation. GFP:ORTH2 over-expressers also have increased levels of FWA transcripts.;Zinc finger (C3HC4-type RING finger) family protein transcript=eq;prot=eq; - 1 No
AT1G66040 ath predicted to encode a protein with an N-terminal PHD domain and two RING domains surrounding an SRA domain. Attempts to isolate ORTH4/VIM4 cDNA through RT-PCR were unsuccessful and analysis of the expression of this gene is difficult since it shares 99% nucleotide identity with ORTH5/VIM2.;Zinc finger (C3HC4-type RING finger) family protein transcript=eq;prot=eq; - 1 No
AT1G66050 ath Encodes a protein that is similar to VIM1 but is not involved in cytosine methylation. This protein has an N-terminal PHD domain and two RING domains surrounding an SRA domain. ORTH5/VIM2 has E3 ubiquitin ligase activity in vitro.;Zinc finger (C3HC4-type RING finger) family protein transcript=eq;prot=eq; + 1 No
AT4G08590 ath ORTHRUS-like (ORTHL); CONTAINS InterPro DOMAIN/s: SRA-YDG (InterPro:IPR003105), Zinc finger, RING-type (InterPro:IPR001841), Zinc finger, C3HC4 RING-type (InterPro:IPR018957); BEST Arabidopsis thaliana protein match is: Zinc finger (C3HC4-type RING finger) family protein (TAIR:AT1G57820.2); Has 2775 Blast hits to 2701 proteins in 230 species: Archae - 0; Bacteria - 14; Metazoa - 1738; Fungi - 176; Plants - 609; Viruses - 10; Other Eukaryotes - 228 (source: NCBI BLink).;ORTHRUS-like transcript=eq;prot=eq; - 4 No
AT5G39550 ath Encodes the VIM3/ORTH1 protein that is similar to VIM1. This protein has an N-terminal PHD domain and two RING domains surrounding an SRA domain. The protein has been shown to bind to methylated cytosines of CG, CNG and CNN motifs via its SRA domain but has a preference for the former. This protein functions as an E3 ubiquitin ligase in vitro with members of the UBC8 family E2s. Either of the two RING domains present in the protein can promote ubiquitylation in vitro, but, not the PHD domain. Over-expression of ORTH1/VIM3 leads to decreased levels of FWA methylation, increased levels of FWA transcripts, and delayed flowering. Cen180 repeats are also hypomethylated in plants overexpressing this protein.;Zinc finger (C3HC4-type RING finger) family protein transcript=eq;prot=eq; - 5 No
BD2G40000 bdi RING, subfamily zinc finger, C3HC4 type domain containing protein pid=Bradi2g40000.1;tid=Bradi2g40000.1;GeneName=Bradi2g40000;transcript=eq;prot=eq - Bd2 No
BD4G38230 bdi RING, subfamily zinc finger, C3HC4 type domain containing protein pid=Bradi4g38230.1;tid=Bradi4g38230.1;GeneName=Bradi4g38230;transcript=eq;prot=eq + Bd4 No
CP00003G04230 cpa name=evm.TU.supercontig_3.423;pid=evm.TU.supercontig_3.423;prot=eq;transcript=eq - supercontig_3 No
CP43195G00010 cpa name=evm.TU.contig_43195.1;pid=evm.TU.contig_43195.1;prot=eq;transcript=eq + contig_43195 No
CP43701G00010 cpa name=evm.TU.contig_43701.1;pid=evm.TU.contig_43701.1;prot=eq;transcript=eq - contig_43701 No
CP46078G00010 cpa name=evm.TU.contig_46078.1;pid=evm.TU.contig_46078.1;prot=eq;transcript=eq - contig_46078 No
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