Basic Information
Locus ID:
Ag11G03380
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
pre-mRNA-processing factor
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr11 | 13340441 | 13343941 | - | Ag11G03380 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.81 | 114,493.80 Da | 45.68 | 88.48 | -0.47 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd17039 | Ubl_ubiquitin_like | 2 | 75 | 4.69646E-5 | - |
| Pfam | PF13428 | Tetratricopeptide repeat | 786 | 827 | 3.8E-6 | - |
| Pfam | PF06424 | PRP1 splicing factor, N-terminal | 101 | 265 | 1.9E-55 | IPR010491 |
| SUPERFAMILY | SSF48452 | TPR-like | 500 | 589 | 3.0E-10 | IPR011990 |
| SUPERFAMILY | SSF54236 | Ubiquitin-like | 2 | 88 | 9.4E-7 | IPR029071 |
| SUPERFAMILY | SSF48452 | TPR-like | 786 | 989 | 3.52E-35 | IPR011990 |
| SUPERFAMILY | SSF48452 | TPR-like | 364 | 542 | 2.2E-6 | IPR011990 |
| SUPERFAMILY | SSF48452 | TPR-like | 578 | 786 | 7.21E-22 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 767 | 1000 | 8.1E-41 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 685 | 765 | 2.3E-5 | IPR011990 |
| Gene3D | G3DSA:3.10.20.90 | - | 1 | 97 | 1.4E-6 | - |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 489 | 678 | 4.7E-23 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 355 | 431 | 5.5E-8 | IPR011990 |
| SMART | SM00386 | hat_new_1 | 833 | 865 | 0.58 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 867 | 899 | 75.0 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 522 | 551 | 16.0 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 765 | 797 | 0.033 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 799 | 831 | 1.2E-4 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 398 | 430 | 1.8 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 931 | 963 | 1.8 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 697 | 729 | 17.0 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 629 | 661 | 0.0012 | IPR003107 |
| SMART | SM00028 | tpr_5 | 785 | 818 | 0.07 | IPR019734 |
| SMART | SM00028 | tpr_5 | 819 | 852 | 48.0 | IPR019734 |
| SMART | SM00028 | tpr_5 | 751 | 784 | 310.0 | IPR019734 |
| SMART | SM00028 | tpr_5 | 917 | 950 | 150.0 | IPR019734 |
| SMART | SM00386 | hat_new_1 | 459 | 491 | 14.0 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 492 | 521 | 8.4 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 731 | 763 | 940.0 | IPR003107 |
| SMART | SM00386 | hat_new_1 | 364 | 396 | 0.31 | IPR003107 |
| ProSiteProfiles | PS50053 | Ubiquitin domain profile. | 1 | 81 | 10.375188 | IPR000626 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 135 | 172 | - | - |
| Coils | Coil | Coil | 825 | 845 | - | - |
| Coils | Coil | Coil | 210 | 230 | - | - |
| Coils | Coil | Coil | 791 | 811 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G03430.1 | pre-mRNA splicing factor-related. Encodes a nuclear protein similar to the human U5 small ribonucleoprotein-associated 102-kD protein and to the yeast pre-mRNA splicing factors Prp1p and Prp6p. STA1 expression is upregulated by cold stress, and the sta1-1 mutant is defective in the splicing of the cold-induced COR15A gene. Luciferase imaging was used to isolate a recessive mutant, sta1-1, with enhanced stability of the normally unstable luciferase transcript. This mutation also causes the stabilization of some endogenous gene transcripts and has a range of developmental and stress response phenotypes. | 0 |
| RefSeq | XP_017258272.1 | PREDICTED: protein STABILIZED1 [Daucus carota subsp. sativus] | 0 |
| Q9ZT71 | Protein STABILIZED1 OS=Arabidopsis thaliana OX=3702 GN=STA1 PE=1 SV=1 | 0 | |
| TrEMBL | A0A164W7T1 | PRP1_N domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_021237 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 24.683651 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 19.316601 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 22.905113 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 23.897652 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 23.512697 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 25.524929 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 24.497648 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 25.561918 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 43.420883 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 41.909134 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 43.522903 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 47.920067 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 45.152023 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 38.979671 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 8.717535 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.81932 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 9.84734 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 13.692782 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 9.994603 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 12.765399 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 15.155956 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 13.852831 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 12.1272 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 11.52928 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 12.46264 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 14.411878 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 12.38014 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 13.145035 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 15.125873 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 7.877075 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 10.547574 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 7.269536 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 29.48579 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 16.917318 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 23.555477 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 12.244037 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 7.417941 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 8.826982 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 18.480087 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 11.838235 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 8.952269 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 15.146406 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 12.681474 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 24.209406 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 22.052755 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 14.491521 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 25.484097 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 15.754761 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 14.356812 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 12.194245 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg24228 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_25531 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah023281, Ah028855 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g170520 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg27048, Sbi_jg33481, Sbi_jg33507 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8188 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00002892 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl73335, Sgl76863 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000007070, gene:ENSEOMG00000034675 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.1AG0006900, CQ.Regalona.r1.2BG0022530 ... |
| Apiaceae | Apium graveolens | 1 | Ag11G03380 |
| Arecaceae | Cocos nucifera | 1 | scaffold005346G000020 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103721117, gene-LOC120109931 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_01.1475.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri11G11693 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT4G03430.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10028386m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g03490.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB08g038760.2N, BniB08g046250.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G2556, Ceq02G2588 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G2641, Cgl02G2671 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno14g02390 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0061s00032.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g08870 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG04.1882 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00029444 |
| Poaceae | Echinochloa crus-galli | 5 | AH05.2502, BH01.1898, BH05.2584, CH01.2008, CH05.2694 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0112490, gene-QOZ80_2BG0165860 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.1HG0047130.1.CDS1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_011796, gene-QYE76_011867 |
| Poaceae | Oryza coarctata | 3 | Oco01G007000, Oco19G007150, Oco20G007110 |
| Poaceae | Oryza sativa | 2 | LOC_Os01g15860.1, LOC_Os10g35550.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G187500 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0302149, Pt_Chr0502765 |
| Poaceae | Sporobolus alterniflorus | 1 | Chr09G001970 |
| Poaceae | Thinopyrum elongatum | 3 | Tel1E01G306700, Tel4E01G078000, Tel4E01G540400 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC1AG025960, gene_TRIDC1BG031020 ... |
| Poaceae | Triticum aestivum | 5 | TraesCS1A02G170500.1, TraesCS1D02G168200.1.cds1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb137760_P001, Zm00001eb410870_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-43958 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g15215 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG08.1650, evm.TU.LG22.539 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g10210 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_5_RagTag.1381, evm.TU.Scaffold_9_RagTag.1261 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-11897, nbisL1-mrna-20906 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-2825, nbisL1-mrna-8710 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-11080 |
| Rhizophoraceae | Kandelia candel | 1 | add.evm.TU.utg000006l.326 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00014081 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-20820 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-15367, nbisL1-mrna-4810 |
| Salicaceae | Populus euphratica | 1 | populus_peu16870 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132616644 |
| Solanaceae | Solanum chilense | 1 | SOLCI002779600 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107026062 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_15112 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G1856 |
| Zosteraceae | Zostera marina | 1 | Zosma03g28440.v3.1 |