Gene family 
- Id
- HOM001116
- Method
- BLASTP E_value=1e-05 MCL_I=2
- Sequences
- 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:
- gene family : HOM001116
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 |