Gene family  

Sub-families
ORTHO000776 (47 genes in 25 species)
ORTHO024228 (5 genes in 5 species)
ORTHO034638 (3 genes in 2 species)
View all sub-families (6)
 
Keywords


Overview of gene family content




aly
Arabidopsis lyrata (4 genes)
ath
Arabidopsis thaliana (4 genes)
bdi
Brachypodium distachyon (4 genes)
cpa
Carica papaya (5 genes)
cre
Chlamydomonas reinhardtii (1 gene)
fve
Fragaria vesca (5 genes)
gma
Glycine max (7 genes)
lja
Lotus japonicus (3 genes)
mdo
Malus domestica (13 genes)
mes
Manihot esculenta (5 genes)
mrcc299
Micromonas sp. RCC299 (1 gene)
mtr
Medicago truncatula (3 genes)
olu
Ostreococcus lucimarinus (1 gene)
osa
Oryza sativa ssp. japonica (4 genes)
osaindica
Oryza sativa ssp. indica (5 genes)
ota
Ostreococcus tauri (1 gene)
ppa
Physcomitrella patens (3 genes)
ptr
Populus trichocarpa (6 genes)
rco
Ricinus communis (4 genes)
sbi
Sorghum bicolor (5 genes)
smo
Selaginella moellendorffii (5 genes)
tca
Theobroma cacao (2 genes)
vca
Volvox carteri (1 gene)
vvi
Vitis vinifera (3 genes)
zma
Zea mays (6 genes)



The gene family HOM001116 has 101 genes in 25 species (4 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 6, showing 20 records out of 101 total, starting on record 1, ending on 20

gene_id species description comment strand chr outlier
AL1G10170 aly name=fgenesh2_kg.1__1097__AT1G10320.1;pid=471143;prot=eq;tid=471143 - scaffold_1 No
AL1G28850 aly name=fgenesh2_kg.1__2923__AT1G27650.1;pid=472969;prot=eq;tid=472969 + scaffold_1 No
AL5G12720 aly name=fgenesh1_pm.C_scaffold_5000707;pid=323163;prot=eq;tid=323163 - scaffold_5 No
AL8G08010 aly name=fgenesh2_kg.8__553__AT5G42820.1;pid=494737;prot=eq;tid=494737 + scaffold_8 No
AT1G10320 ath Zinc finger C-x8-C-x5-C-x3-H type family protein; FUNCTIONS IN: RNA binding, nucleotide binding, zinc ion binding, nucleic acid binding; LOCATED IN: nucleus; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571), RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), RNA recognition, domain 1 (InterPro:IPR003954), U2 auxiliary factor small subunit (InterPro:IPR009145); BEST Arabidopsis thaliana protein match is: U2 snRNP auxiliary factor small subunit, putative (TAIR:AT1G27650.1); Has 103377 Blast hits to 43645 proteins in 2110 species: Archae - 258; Bacteria - 11294; Metazoa - 44927; Fungi - 9113; Plants - 5313; Viruses - 581; Other Eukaryotes - 31891 (source: NCBI BLink).;Zinc finger C-x8-C-x5-C-x3-H type family protein transcript=eq;prot=eq; - 1 No
AT1G27650 ath U2 auxiliary factor small subunit. The atU2AF35a protein and its homolog, atU2AF35b, contain most of the conserved domains of hsU2AF35, including the psiRRM, one RS domain, two zinc fingers, and the two regions for interacting with U2AF large subunit. Both proteins lack the stretch of glycines present in human U2AF35. The sequences are overall 83% identical, and each Arabidopsis homolog shows approximately 70% similarity to hsU2AF35. U2AF(35) homologs were also identified from maize, rice and other plants with large-scale EST projects. Both genes are expressed in all major tissues, with atU2AF(35)a expressed at a higher level than atU2AF(35)b in most tissues. The expression patterns were different in roots: atU2AF(35)b expressed strongly in whole young roots and root tips and atU2AF(35)a limited to root vascular regions.;U2 snRNP auxiliary factor small subunit, putative transcript=eq;prot=eq; + 1 No
AT3G44785 ath Zinc finger C-x8-C-x5-C-x3-H type family protein; FUNCTIONS IN: RNA binding, zinc ion binding, nucleic acid binding; INVOLVED IN: biological_process unknown; LOCATED IN: nucleus; CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571), U2 auxiliary factor small subunit (InterPro:IPR009145); BEST Arabidopsis thaliana protein match is: U2 snRNP auxiliary factor small subunit, putative (TAIR:AT1G27650.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).;Zinc finger C-x8-C-x5-C-x3-H type family protein transcript=eq;prot=eq; - 3 No
AT5G42820 ath U2 auxiliary factor small subunit. The atU2AF35b protein and its homolog, atU2AF35a, contain most of the conserved domains of hsU2AF35, including the psiRRM, one RS domain, two zinc fingers, and the two regions for interacting with U2AF large subunit. Both proteins lack the stretch of glycines present in human U2AF35. The sequences are overall 83% identical, and each Arabidopsis homolog shows approximately 70% similarity to hsU2AF35. U2AF(35) homologs were also identified from maize, rice and other plants with large-scale EST projects. Both genes are expressed in all major tissues, with atU2AF(35)a expressed at a higher level than atU2AF(35)b in most tissues. The expression patterns were different in roots: atU2AF(35)b expressed strongly in whole young roots and root tips and atU2AF(35)a limited to root vascular regions.;Zinc finger C-x8-C-x5-C-x3-H type family protein transcript=eq;prot=eq; - 5 No
BD2G16520 bdi RRM domain containing protein similar to U2 auxiliary factor small subunit, U2AF35B, [Arabidopsis thaliana] AT5G42820 pid=Bradi2g16520.1;tid=Bradi2g16520.1;GeneName=Bradi2g16520;transcript=eq;prot=eq - Bd2 No
BD2G46080 bdi RRM domain containing protein similar to U2 snRNP auxiliary factor-related protein, [Arabidopsis thaliana] AT1G27650 pid=Bradi2g46080.1;tid=Bradi2g46080.1;GeneName=Bradi2g46080;transcript=eq;prot=eq - Bd2 No
BD3G45896 bdi pid=Bradi3g45896.1;tid=Bradi3g45896.1;GeneName=Bradi3g45896;transcript=eq;prot=eq + Bd3 No
BD4G33870 bdi RRM domain containing protein similar to U2 auxiliary factor small subunit, [Arabidopsis thaliana] AT1G27650 pid=Bradi4g33870.1;tid=Bradi4g33870.1;GeneName=Bradi4g33870;transcript=eq;prot=eq + Bd4 No
CP00047G00470 cpa name=evm.TU.supercontig_47.47;pid=evm.TU.supercontig_47.47;prot=eq;transcript=eq - supercontig_47 No
CP00080G00060 cpa name=evm.TU.supercontig_80.6;pid=evm.TU.supercontig_80.6;prot=eq;transcript=eq - supercontig_80 Yes
CP00173G00380 cpa name=evm.TU.supercontig_173.38;pid=evm.TU.supercontig_173.38;prot=eq;transcript=eq + supercontig_173 No
CP00173G00410 cpa name=evm.TU.supercontig_173.41;pid=evm.TU.supercontig_173.41;prot=eq;transcript=eq + supercontig_173 Yes
CP24967G00070 cpa name=evm.TU.contig_24967.7;pid=evm.TU.contig_24967.7;prot=eq;transcript=eq - contig_24967 No
CR06G00470 cre name=Chlre2_kg.scaffold_3000449;pid=142476;prot=eq;tid=142476;transcript=eq - chromosome_6 No
FV3G16360 fve Splicing factor U2af small subunit A (U2 snRNP auxiliary factor small subunit A) (similar to) transcript=eq;prot=eq;pid=gene14353 - LG3 No
FV4G06960 fve UDP-N-acetylmuramoylalanine--D-glutamate ligase (probable) transcript=eq;prot=eq;pid=gene01762 + LG4 Yes
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