Basic Information
Locus ID:
Ag10G01089
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Splicing factor 3B subunit
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr10 | 159655834 | 159661739 | - | Ag10G01089 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.24 | 134,663.69 Da | 38.54 | 91.34 | -0.18 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF10433 | Mono-functional DNA-alkylating methyl methanesulfonate N-term | 75 | 589 | 6.6E-169 | IPR018846 |
| Pfam | PF03178 | CPSF A subunit region | 858 | 1178 | 1.1E-92 | IPR004871 |
| SUPERFAMILY | SSF69322 | Tricorn protease domain 2 | 40 | 624 | 1.96E-6 | - |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 528 | 1061 | 8.42E-9 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 440 | 767 | 7.8E-246 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 4 | 1123 | 7.8E-246 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 13 | 401 | 7.8E-246 | IPR015943 |
| Coils | Coil | Coil | 1201 | 1212 | - | - |
Gene Ontology
Molecular Function:
Cellular Component:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G55200.1 | Cleavage and polyadenylation specificity factor (CPSF) A subunit protein. | 0 |
| RefSeq | XP_017247100.1 | PREDICTED: splicing factor 3B subunit 3 [Daucus carota subsp. sativus] | 0 |
| P0DKL4 | Spliceosome-associated protein 130 A OS=Arabidopsis thaliana OX=3702 GN=SAP130A PE=2 SV=1 | 0 | |
| TrEMBL | A0A165WFD4 | Splicing factor 3B subunit 3-like OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_015231 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 18.420666 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 11.771433 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 8.637245 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 9.347057 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 10.071474 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 7.30896 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 7.782316 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.017178 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 20.567652 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 18.026609 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 23.233158 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 20.31654 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 21.383492 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 14.89539 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 2.389976 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 4.199211 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 3.917824 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 4.34514 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 3.291764 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 5.337249 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 6.527886 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 6.405081 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 7.502151 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 6.238998 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 6.041713 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 8.142096 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 5.647719 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 5.964411 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 5.882892 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.156396 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 1.07465 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.023019 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 6.223656 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 7.850925 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 4.960142 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 3.913522 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.292865 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.791813 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 7.929539 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 3.945257 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.89956 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 3.419461 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 2.189766 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 6.061224 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 4.560875 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 5.261777 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 5.430186 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 13.291506 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 11.302322 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 13.066819 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg6032 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_12941 |
| Amaranthaceae | Atriplex hortensis | 3 | Ah019408, Ah021817, Ah033412 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg20834, Sbi_jg22928, Sbi_jg9583, Sbi_jg9584 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg16804, Seu_jg19055 |
| Amaranthaceae | Suaeda aralocaspica | 6 | GOSA_00009338, GOSA_00009339, GOSA_00009353, GOSA_00009354 ... |
| Amaranthaceae | Suaeda glauca | 14 | Sgl52637, Sgl52638, Sgl52644, Sgl52662, Sgl57928, Sgl57929 ... |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000017520, gene:ENSEOMG00000020834 ... |
| Amaranthaceae | Chenopodium quinoa | 5 | CQ.Regalona.r1.2AG0011020, CQ.Regalona.r1.2BG0012400 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30172010 |
| Apiaceae | Apium graveolens | 2 | Ag10G01089, Ag2G00646 |
| Arecaceae | Cocos nucifera | 2 | COCNU_05G007760, contig69433177G000010 |
| Asparagaceae | Asparagus officinalis | 4 | AsparagusV1_05.3583.V1.1, AsparagusV1_05.3584.V1.1 ... |
| Asteraceae | Flaveria trinervia | 1 | FtriNA32957 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G55200.1, AT3G55220.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10006588m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp5g07240.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB06g056860.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G0703 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G0710 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno13g01910 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0114s00023.v1.0, Dusal.2612s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate07g11090 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-4015 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG09.1188 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00023126 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb0G37822, Lb0G37823, Lb1G04707 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.5132, BH01.5078, BH01.5268 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0101090, gene-QOZ80_2BG0154490 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0556470.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_020222 |
| Poaceae | Oryza coarctata | 2 | Oco03G002100, Oco04G001940 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g04480.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G032800 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0201560, Pt_Chr0201562 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr06G035170, Chr0G011980, Chr0G012280, Chr15G026520 |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G238500 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC6AG013870, gene_TRIDC6BG019280 |
| Poaceae | Triticum aestivum | 3 | TraesCS6A02G107200.1, TraesCS6B02G135400.1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb163410_P001, Zm00001eb163420_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-29989, nbis-gene-33770 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g12167, Zma_g14924 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG04.2456, evm.TU.LG10.1583 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc10g04270 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_2_RagTag.1776 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-3036, nbisL1-mrna-3132 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-19162 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-13928 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000009l.239 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00005438 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-12794 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-16406 |
| Salicaceae | Populus euphratica | 2 | populus_peu06371, populus_peu20198 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132614423 |
| Solanaceae | Solanum chilense | 1 | SOLCI006428200 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107017738 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_5776 |
| Tamaricaceae | Tamarix chinensis | 1 | TC02G2781 |
| Zosteraceae | Zostera marina | 1 | Zosma06g18440.v3.1 |