Basic Information
Locus ID:
Ag3G00081
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Rhamnogalacturonate lyase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 1940101 | 1953175 | + | Ag3G00081 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.02 | 113,639.09 Da | 31.84 | 78.00 | -0.44 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd10316 | RGL4_M | 685 | 783 | 8.93122E-32 | IPR029413 |
| CDD | cd10320 | RGL4_N | 1 | 166 | 8.541E-41 | - |
| CDD | cd10320 | RGL4_N | 364 | 651 | 1.8878E-63 | - |
| CDD | cd10317 | RGL4_C | 795 | 983 | 7.01574E-55 | - |
| CDD | cd10316 | RGL4_M | 203 | 294 | 1.41206E-26 | IPR029413 |
| Pfam | PF06045 | Rhamnogalacturonate lyase family | 1 | 86 | 1.6E-34 | IPR010325 |
| Pfam | PF06045 | Rhamnogalacturonate lyase family | 361 | 553 | 2.9E-76 | IPR010325 |
| Pfam | PF14686 | Polysaccharide lyase family 4, domain II | 226 | 293 | 4.4E-20 | IPR029413 |
| Pfam | PF14683 | Polysaccharide lyase family 4, domain III | 793 | 982 | 3.1E-55 | IPR029411 |
| Pfam | PF14683 | Polysaccharide lyase family 4, domain III | 288 | 368 | 1.9E-17 | IPR029411 |
| Pfam | PF14686 | Polysaccharide lyase family 4, domain II | 709 | 779 | 1.3E-21 | IPR029413 |
| SUPERFAMILY | SSF49452 | Starch-binding domain-like | 685 | 774 | 1.67E-7 | IPR013784 |
| SUPERFAMILY | SSF49452 | Starch-binding domain-like | 241 | 290 | 1.86E-5 | IPR013784 |
| SUPERFAMILY | SSF49785 | Galactose-binding domain-like | 790 | 983 | 2.64E-49 | IPR008979 |
| SUPERFAMILY | SSF49785 | Galactose-binding domain-like | 296 | 397 | 3.66E-10 | IPR008979 |
| Gene3D | G3DSA:2.60.120.260 | - | 791 | 983 | 3.8E-18 | - |
| Gene3D | G3DSA:2.70.98.10 | - | 356 | 656 | 2.4E-8 | IPR014718 |
| Gene3D | G3DSA:2.60.40.1120 | - | 684 | 770 | 2.6E-5 | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G09890.4 | - | 0 |
| RefSeq | XP_011016984.1 | PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC105120478 [Populus euphratica] | 0 |
| TrEMBL | A0A165Z9X9 | rhamnogalacturonan endolyase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_012850 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 0.361997 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 0.453985 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0.34587 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 0.384253 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 0.180326 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0.138391 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 0.273551 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.422769 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 26.017458 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 24.350758 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 28.724039 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 27.608835 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 22.990007 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 18.946888 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.461821 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 2.229514 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 2.669852 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 5.013238 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 2.175265 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 3.108402 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 4.271374 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 11.658699 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 9.376995 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 12.094628 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 11.164857 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 5.835522 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 3.768445 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 1.834947 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 3.401668 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.199702 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.710525 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.504516 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.309713 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 2.770929 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0.3502 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.068022 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.21568 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 4.72156 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 1.482296 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.1425 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0.039389 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.440115 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0.326597 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0.88086 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 0.152154 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 1.072928 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 26.53091 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 26.827118 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 26.292442 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology