Basic Information
Locus ID:
Ag9G01695
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Splicing factor U2AF
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr9 | 218533839 | 218546862 | - | Ag9G01695 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.30 | 114,842.59 Da | 58.97 | 65.91 | -0.93 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 608 | 675 | 6.4E-8 | IPR000504 |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 495 | 578 | 3.53E-12 | IPR035979 |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 725 | 1020 | 3.15E-7 | IPR035979 |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 603 | 681 | 7.74E-13 | IPR035979 |
| Gene3D | G3DSA:3.30.70.330 | - | 495 | 677 | 1.6E-34 | IPR012677 |
| Gene3D | G3DSA:3.30.70.330 | - | 706 | 788 | 1.3E-8 | IPR012677 |
| Gene3D | G3DSA:3.30.70.330 | - | 902 | 1023 | 3.9E-8 | IPR012677 |
| Gene3D | G3DSA:3.30.70.330 | - | 602 | 655 | 1.6E-34 | IPR012677 |
| SMART | SM00360 | rrm1_1 | 607 | 678 | 3.7E-10 | IPR000504 |
| SMART | SM00360 | rrm1_1 | 496 | 574 | 0.013 | IPR000504 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 606 | 682 | 10.530743 | IPR000504 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 495 | 578 | 9.950859 | IPR000504 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 25 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 268 | 286 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 40 | 163 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 293 | 319 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 170 | 255 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 40 | 435 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G33435.1 | RNA-binding (RRM/RBD/RNP motifs) family protein. | 0 |
| RefSeq | XP_017229850.1 | PREDICTED: uncharacterized protein LOC108204761 [Daucus carota subsp. sativus] | 0 |
| Q24562 | Splicing factor U2AF 50 kDa subunit OS=Drosophila melanogaster OX=7227 GN=U2af50 PE=1 SV=1 | 0 | |
| TrEMBL | A0A166H2R5 | RRM domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_002305 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 9.323776 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 5.803537 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 5.220633 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 5.588912 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 5.696843 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 5.565523 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 5.697052 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.211321 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 19.520666 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 19.08276 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 20.606054 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 16.885317 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 18.004124 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 15.877511 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 5.555416 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 7.464952 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 5.79474 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 9.029881 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 5.753868 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 6.201571 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 10.113347 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 7.864076 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 8.389903 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 7.499402 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 7.19359 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 10.572951 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 7.135556 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 9.062755 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 8.642864 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.512369 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 2.611744 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.570492 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 2.336232 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 3.512965 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 2.050679 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 1.318882 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.718603 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.209305 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 5.87487 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 4.765591 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 3.382674 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 5.918151 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 6.162584 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 10.038626 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 10.47827 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 5.897401 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 10.60695 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 8.116026 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 6.865925 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 6.417607 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg27761 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_15943 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah018258 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_3g048590 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg37904, Sbi_jg6050 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg28193 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00006141 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl00932, Sgl05886, Sgl06010 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000001151, gene:ENSEOMG00000031108 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0008450, CQ.Regalona.r1.3BG0008620 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30239540 |
| Apiaceae | Apium graveolens | 2 | Ag10G02280, Ag9G01695 |
| Arecaceae | Cocos nucifera | 2 | COCNU_07G001060, scaffold001442G000080 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103716253 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_04.157.V1.1, AsparagusV1_05.2860.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri11G11908 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT2G33435.1, AT2G33440.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10016212m.g.v1.0, Thhalv10016911m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g15780.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB08g018230.2N, BniB08g021210.2N |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno03g06410 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g00490 |
| Nitrariaceae | Nitraria sibirica | 3 | evm.TU.LG09.264, evm.TU.LG09.265, evm.TU.LG11.767 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00022751 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb2G08784 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.5240, BH01.4971, CH01.5573 |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_3AG0232980 |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.4HG0411360.1, HORVU.MOREX.r3.4HG0411370.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_070977 |
| Poaceae | Oryza coarctata | 2 | Oco05G002380, Oco06G002320 |
| Poaceae | Oryza sativa | 2 | LOC_Os01g72650.1, LOC_Os03g04520.2 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G487800 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0100173, Pt_Chr0100298 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G037780, Chr04G004960, Chr07G006620, Chr12G001660 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G553400 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4BG056670, gene_TRIDC5AG072420 |
| Poaceae | Zea mays | 1 | Zm00001eb402770_P003 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-4565 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g4463 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG11.1404 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc02g16310 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_3_RagTag.1300 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-1619 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-1742 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-2554 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000019l.460 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00001629 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-6246 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-1992 |
| Salicaceae | Populus euphratica | 1 | populus_peu21573 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132610403 |
| Solanaceae | Solanum chilense | 1 | SOLCI002666100 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107031347 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_12579 |
| Tamaricaceae | Tamarix chinensis | 1 | TC05G1739 |
| Zosteraceae | Zostera marina | 2 | Zosma04g25940.v3.1, Zosma04g25950.v3.1 |