Basic Information
Locus ID:
Ag2G00481
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Rhamnogalacturonate lyase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr2 | 11964757 | 11972450 | + | Ag2G00481 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.20 | 75,870.92 Da | 35.09 | 78.59 | -0.45 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd10320 | RGL4_N | 38 | 332 | 2.284E-80 | - |
| CDD | cd10317 | RGL4_C | 474 | 661 | 1.68305E-51 | - |
| CDD | cd10316 | RGL4_M | 363 | 455 | 1.73601E-32 | IPR029413 |
| Pfam | PF06045 | Rhamnogalacturonate lyase family | 38 | 232 | 8.8E-86 | IPR010325 |
| Pfam | PF14686 | Polysaccharide lyase family 4, domain II | 386 | 457 | 7.4E-25 | IPR029413 |
| Pfam | PF14683 | Polysaccharide lyase family 4, domain III | 472 | 660 | 7.9E-56 | IPR029411 |
| SUPERFAMILY | SSF74650 | Galactose mutarotase-like | 39 | 323 | 1.19E-6 | IPR011013 |
| SUPERFAMILY | SSF49452 | Starch-binding domain-like | 363 | 454 | 4.12E-8 | IPR013784 |
| SUPERFAMILY | SSF49785 | Galactose-binding domain-like | 469 | 661 | 3.91E-50 | IPR008979 |
| Gene3D | G3DSA:2.60.120.260 | - | 470 | 661 | 3.6E-18 | - |
| Gene3D | G3DSA:2.70.98.10 | - | 34 | 300 | 1.3E-8 | IPR014718 |
| Gene3D | G3DSA:2.60.40.1120 | - | 360 | 457 | 2.2E-7 | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G09910.1 | Rhamnogalacturonate lyase family protein. | 0 |
| RefSeq | XP_017251384.1 | PREDICTED: rhamnogalacturonate lyase-like [Daucus carota subsp. sativus] | 0 |
| TrEMBL | A0A164ZLB5 | rhamnogalacturonan endolyase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_019325 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 15.300946 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 13.173578 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 17.328308 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 17.449221 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 17.280119 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 18.064142 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 16.658939 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 9.639895 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 12.865435 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 12.449122 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 12.444102 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 13.575644 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 14.671065 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 12.63973 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 12.491816 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 12.47804 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 11.409724 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 13.398603 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 13.396 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 13.410518 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 17.23999 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 16.290855 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 12.451745 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 15.097566 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 15.035461 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 16.197847 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 11.397267 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 13.448292 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 12.231439 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 4.055085 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 3.606507 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.366422 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 12.535185 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 9.557901 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 13.09014 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 8.693584 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 6.697297 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 7.014865 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 3.420106 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 2.99332 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 3.414927 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 15.933629 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 19.698486 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 15.463818 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 15.991157 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 14.26111 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 20.804436 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 17.639029 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 17.51053 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 19.420565 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology