Basic Information
Locus ID:
Ag8G02178
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 |
|---|---|---|---|---|
| chr8 | 265043613 | 265048922 | + | Ag8G02178 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.65 | 141,536.08 Da | 41.75 | 93.00 | -0.30 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF08920 | Splicing factor 3B subunit 1 | 283 | 411 | 1.6E-43 | IPR015016 |
| SUPERFAMILY | SSF48371 | ARM repeat | 461 | 1252 | 1.67E-100 | IPR016024 |
| Gene3D | G3DSA:1.25.10.10 | - | 1085 | 1259 | 3.6E-6 | IPR011989 |
| Gene3D | G3DSA:1.25.10.10 | - | 791 | 1084 | 2.3E-30 | IPR011989 |
| Gene3D | G3DSA:1.25.10.10 | - | 451 | 790 | 4.5E-23 | IPR011989 |
| SMART | SM01349 | TOG_3 | 843 | 1078 | 0.0032 | IPR034085 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 43 | 62 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 75 | 98 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 146 | 268 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 146 | 204 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 83 | 98 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 280 | 308 | - | - |
| Coils | Coil | Coil | 145 | 169 | - | - |
| Coils | Coil | Coil | 5 | 25 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G64270.1 | splicing factor, putative. | 0 |
| RefSeq | XP_017222573.1 | PREDICTED: splicing factor 3B subunit 1 [Daucus carota subsp. sativus] | 0 |
| O75533 | Splicing factor 3B subunit 1 OS=Homo sapiens OX=9606 GN=SF3B1 PE=1 SV=3 | 0 | |
| TrEMBL | A0A175YQS7 | TOG domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_026599 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 67.230545 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 60.556061 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 57.539978 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 60.531918 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 65.196602 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 63.867874 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 56.883057 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 60.587723 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 92.30442 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 87.44693 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 88.474312 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 91.859047 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 83.959938 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 76.350189 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 16.414427 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 18.246105 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 19.162905 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 27.863422 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 17.473412 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 27.910593 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 32.994354 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 29.226057 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 35.042542 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 29.625999 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 28.196392 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 32.252644 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 26.066408 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 27.185293 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 29.644161 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 26.702774 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 32.505386 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 28.570826 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 60.920055 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 41.58205 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 52.305431 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 42.932774 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 32.132526 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 35.12904 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 38.696915 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 24.565731 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 18.085419 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 37.960762 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 31.259882 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 59.074856 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 51.993538 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 32.293514 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 46.143688 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 35.201496 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 35.573566 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 30.040482 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg15778, jg4177 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_7973 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah000375 |
| Amaranthaceae | Salicornia bigelovii | 5 | Sbi_jg31943, Sbi_jg31944, Sbi_jg4354, Sbi_jg49473 ... |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg25111, Seu_jg5769 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00000315, GOSA_00023166 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl11243, Sgl16637 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000002037, gene:ENSEOMG00000026694 ... |
| Amaranthaceae | Chenopodium quinoa | 5 | CQ.Regalona.r1.1AG0006070, CQ.Regalona.r1.2BG0023660 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30253660 |
| Apiaceae | Apium graveolens | 1 | Ag8G02178 |
| Arecaceae | Cocos nucifera | 3 | COCNU_02G019470, COCNU_03G004200, contig69146665G000010 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_05.2349.V1.1, AsparagusV1_05.2350.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri2G24362 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G64270.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10005618m.g.v1.0, Thhalv10024248m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g27330.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB06g012480.2N, BniB07g042710.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq03G2000 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl03G2149 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g13470 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0322s00014.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g16860 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.197 |
| Plantaginaceae | Plantago ovata | 4 | Pov_00006030, Pov_00021600, Pov_00038563, Pov_00038564 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb3G18256, Lb3G18257 |
| Poaceae | Echinochloa crus-galli | 3 | AH07.358, BH07.466, CH03.4464 |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_1AG0027810, gene-QOZ80_1BG0077990 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0558450.1.CDS1 |
| Poaceae | Lolium multiflorum | 5 | gene-QYE76_020347, gene-QYE76_020348, gene-QYE76_046287 ... |
| Poaceae | Oryza coarctata | 2 | Oco03G002360, Oco04G002280 |
| Poaceae | Oryza sativa | 4 | LOC_Os02g04950.1, LOC_Os02g05310.4, LOC_Os02g05410.1 ... |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G036300 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0107745, Pt_Ctg00106 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr02G013460, Chr03G012960, Chr05G020280, Chr08G013210 |
| Poaceae | Thinopyrum elongatum | 4 | Tel2E01G727000, Tel5E01G048400, Tel5E01G048500 ... |
| Poaceae | Triticum dicoccoides | 3 | gene_TRIDC5BG002670, gene_TRIDC6AG015290 ... |
| Poaceae | Triticum aestivum | 5 | TraesCS5B02G017300.1.cds1, TraesCS5D02G025300.1.cds1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb208060_P001, Zm00001eb232170_P001 |
| Poaceae | Zoysia japonica | 3 | nbis-gene-26019, nbis-gene-51725, nbis-gene-51726 |
| Poaceae | Zoysia macrostachya | 4 | Zma_g10830, Zma_g8387, Zma_g8388, Zma_g8389 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG01.2144, evm.TU.LG14.1320 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g28630 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_1_RagTag.1012, evm.TU.Scaffold_2_RagTag.1295 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-3978, nbisL1-mrna-6601 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-14167, nbisL1-mrna-17492 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-18721, nbisL1-mrna-18722, nbisL1-mrna-21191 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000009l.155, add.evm.TU.utg000016l.377 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00004935, Maker00016590 |
| Rhizophoraceae | Rhizophora apiculata | 3 | nbisL1-mrna-21153, nbisL1-mrna-21154, nbisL1-mrna-21736 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-23197 |
| Salicaceae | Populus euphratica | 2 | populus_peu01412, populus_peu24194 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132607318 |
| Solanaceae | Solanum chilense | 1 | SOLCI000035100 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107002044 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.21849_chr08_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC05G2045 |
| Zosteraceae | Zostera marina | 1 | Zosma05g17360.v3.1 |