Gene
RNA
| Item | Value |
|---|---|
| gene id | pcdh15b |
| gene name | pcdh15b,pcdh15,LOC107695531,LOC107654051,LOC108273410,LOC108411428 |
| gene type | coding |
| species | striped catfish (Pangasianodon hypophthalmus) |
| category of species | economic fish |
| Item | Value |
|---|---|
| chromosome id | NC_047606.1 |
| NCBI id | CM018552.1 |
| chromosome length | 26563515 |
| location | 7047571 ~ 7232075 (-) |
| genome version | GENO_Phyp_1.0_2019_striped_catfish_Genome |
| symbol | description |
|---|---|
| pcdh15b | Predicted to enable calcium ion binding activity. Acts upstream of or within detection of light stimulus involved in visual perception and eye development. Predicted to be located in plasma membrane and stereocilium. Predicted to be integral component of membrane. Predicted to be integral component of plasma membrane. Is expressed in brain; epiphysis; eye; and eye photoreceptor cell. Human ortholog(s) of this gene implicated in Usher syndrome type 1D; Usher syndrome type 1F; and autosomal recessive nonsyndromic deafness 23. Orthologous to human PCDH15 (protocadherin related 15). |
| pcdh15 | Predicted to enable calcium ion binding activity and protein N-terminus binding activity. Involved in equilibrioception; photoreceptor cell maintenance; and sensory perception of light stimulus. Acts upstream of or within sensory perception of sound. Located in extracellular space; photoreceptor outer segment; and synapse. Implicated in Usher syndrome type 1D; Usher syndrome type 1F; and autosomal recessive nonsyndromic deafness 23. |
| description |
|---|
| unnamed protein product |
| id | name | namespace |
|---|---|---|
| GO:0050908 | detection of light stimulus involved in visual perception | biological_process |
| GO:0001654 | eye development | biological_process |
| GO:0007156 | homophilic cell adhesion via plasma membrane adhesion molecules | biological_process |
| GO:0005886 | plasma membrane | cellular_component |
| GO:0016021 | integral component of membrane | cellular_component |
| GO:0005509 | calcium ion binding | molecular_function |
| id | description |
|---|---|
| K16500 | PCDH15, USH1F; protocadherin-15 |
| RNA id | representative | length | rna type | GC content | exon number | start site | end site |
|---|---|---|---|---|---|---|---|
| XM_026915361.2 | True | 7418 | mRNA | 0.49 | 38 | 7047571 | 7232075 |
| XM_034309521.1 | False | 6579 | mRNA | 0.51 | 39 | 7049810 | 7232075 |
| XM_034309522.1 | False | 6570 | mRNA | 0.51 | 38 | 7049810 | 7232075 |
| XM_034309523.1 | False | 6564 | mRNA | 0.51 | 38 | 7049810 | 7232075 |
| XM_034309524.1 | False | 6540 | mRNA | 0.51 | 38 | 7049810 | 7232075 |
| gene id | symbol | gene type | direction | distance | location |
|---|---|---|---|---|---|
| a1cf | a1cf,LOC107695528,LOC107708930,LOC107654048 | coding | downstream | 199605 | 6836437 ~ 6847966 (-) |
| aarsd1 | aarsd1,LOC107695514,LOC107739756,LOC107708900 | coding | downstream | 281471 | 6756785 ~ 6766100 (-) |
| g6pca.1 | LOC108274343 | coding | downstream | 294839 | 6747052 ~ 6752732 (-) |
| kat7b | kat7,LOC108443263,LOC107598609,LOC107739754,LOC107708935,LOC107654043 | coding | downstream | 306989 | 6727581 ~ 6740582 (-) |
| dlx4b | LOC108274309 | coding | downstream | 400997 | 6637355 ~ 6646574 (-) |
| ube2d1b | ube2d1,ube2d1b,LOC106607701,LOC105891213,LOC107717106,LOC107553913,LOC107733527,LOC105010549 | coding | upstream | 189891 | 7421966 ~ 7427834 (-) |
| zgc:171971 | LOC108273425 | coding | upstream | 203434 | 7435509 ~ 7442712 (-) |
| fam13c | fam13c | coding | upstream | 314988 | 7547063 ~ 7560750 (-) |
| slc16a9b | slc16a9 | coding | upstream | 342001 | 7574076 ~ 7579872 (-) |
| tmem26b | tmem26 | coding | upstream | 572445 | 7804520 ~ 7809766 (-) |
| G192074 | NA | non-coding | downstream | 232136 | 6813165 ~ 6815435 (-) |
| G192075 | sgms1 | non-coding | downstream | 237813 | 6808205 ~ 6809758 (-) |
| G192062 | NA | non-coding | downstream | 247495 | 6799642 ~ 6800076 (-) |
| G192061 | NA | non-coding | downstream | 251065 | 6796111 ~ 6796506 (-) |
| G192070 | NA | non-coding | downstream | 257418 | 6789866 ~ 6790153 (-) |
| G192437 | NA | non-coding | upstream | 196512 | 7428587 ~ 7428883 (-) |
| G192545 | NA | non-coding | upstream | 397236 | 7629311 ~ 7630373 (-) |
| G192583 | NA | non-coding | upstream | 608288 | 7840363 ~ 7841460 (-) |
| G192584 | NA | non-coding | upstream | 609554 | 7841629 ~ 7841947 (-) |
| G192585 | NA | non-coding | upstream | 609985 | 7842060 ~ 7842634 (-) |
| itga3b | itga3 | other | downstream | 453181 | 6546941 ~ 6594390 (-) |
| LOC113527291 | LOC108274042 | other | downstream | 1256301 | 5768528 ~ 5791270 (-) |
| G191430 | NA | other | downstream | 1433617 | 5611120 ~ 5613954 (-) |
| gdpd3b | gdpd3 | other | downstream | 1556646 | 5484691 ~ 5490925 (-) |
| LOC113527048 | LOC108274181 | other | downstream | 1984153 | 5059498 ~ 5063418 (-) |
| ipmkb | ipmk | other | upstream | 167925 | 7400000 ~ 7418378 (-) |
| ccdc6b | ccdc6,ccdc6b,LOC107695538,LOC107654058,LOC107727062,LOC107746455 | other | upstream | 349275 | 7581350 ~ 7595881 (-) |
| ank3b | ank3,LOC107746453,LOC107654059 | other | upstream | 369143 | 7601218 ~ 7767512 (-) |
| si:dkey-94l16.4 | LOC108273749 | other | upstream | 1615587 | 8847662 ~ 8857748 (-) |
| LOC113527700 | shisa6,LOC108273473,LOC108424875,LOC107706559 | other | upstream | 2136142 | 9368217 ~ 9419487 (-) |
