RetrogeneDB ID: | retro_cjac_1215 | ||
Retrocopylocation | Organism: | Marmoset (Callithrix jacchus) | |
Coordinates: | 14:61638966..61639595(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RAB5B | ||
Ensembl ID: | ENSCJAG00000007527 | ||
Aliases: | None | ||
Description: | RAB5B, member RAS oncogene family [Source:HGNC Symbol;Acc:9784] |
Percent Identity: | 60.09 % |
Parental protein coverage: | 97.24 % |
Number of stop codons detected: | 3 |
Number of frameshifts detected | 2 |
Parental | ARPNGQPQASKICQFKLVLLGESAVGKSSLVLRFV-KGQFHEYQESTIGAIAAFLTQSVCLDDTTVKFEI |
A.P.G.....KICQFKLVLLGESAVGKSSLVL.F.....F...........AAFLT..VC.DDT..K... | |
Retrocopy | AQPSGPAGGNKICQFKLVLLGESAVGKSSLVLCFI>RDSFTSTRRAESTIRAAFLT*TVCSDDTAAKLR- |
Parental | WDTAGQERYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNKADLANKRMV |
..TAGQERYHSLA..Y..G.QAAIVVY.ITN..TFA.A..WVKELQRQASP.I.IALAGNKADL..KR.. | |
Retrocopy | FETAGQERYHSLAATY*GGGQAAIVVYGITNTDTFAWARNWVKELQRQASPNILIALAGNKADLTSKRGM |
Parental | EYEEAQAYADDNSLLFMETSA-KTAMNVNDLFLAIAKKLPKSEPQNLGGAAGRSRGVDLHEQSQQNKSQC |
E..EAQA.A.D.S.L........TA.NVN..F..IAKKLPK.EPQN..GA.G...GVD..E......SQC | |
Retrocopy | EFQEAQACA-DDSTLLLM*TS>QTATNVNEIFMTIAKKLPKYEPQNAAGAPGTNQGVDSQENNPASLSQC |
Parental | CSN |
CSN | |
Retrocopy | CSN |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP051959_colon | 0 .07 RPM | 25 .36 RPM |
SRP051959_heart | 0 .00 RPM | 30 .61 RPM |
SRP051959_kidney | 0 .04 RPM | 28 .09 RPM |
SRP051959_liver | 0 .00 RPM | 27 .49 RPM |
SRP051959_lung | 0 .03 RPM | 35 .54 RPM |
SRP051959_lymph_node | 0 .16 RPM | 20 .80 RPM |
SRP051959_skeletal_muscle | 0 .00 RPM | 28 .59 RPM |
SRP051959_spleen | 0 .04 RPM | 24 .45 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Callithrix jacchus | ENSCJAG00000000472 | 2 retrocopies | |
Callithrix jacchus | ENSCJAG00000003731 | 1 retrocopy | |
Callithrix jacchus | ENSCJAG00000004529 | 2 retrocopies | |
Callithrix jacchus | ENSCJAG00000007527 | 2 retrocopies |
retro_cjac_1215 , retro_cjac_1879,
|
Callithrix jacchus | ENSCJAG00000019039 | 2 retrocopies | |
Dasypus novemcinctus | ENSDNOG00000016952 | 1 retrocopy | |
Equus caballus | ENSECAG00000023306 | 1 retrocopy | |
Echinops telfairi | ENSETEG00000009603 | 2 retrocopies | |
Mus musculus | ENSMUSG00000000711 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000017570 | 1 retrocopy | |
Oryctolagus cuniculus | ENSOCUG00000013895 | 1 retrocopy | |
Ochotona princeps | ENSOPRG00000007883 | 3 retrocopies | |
Procavia capensis | ENSPCAG00000010486 | 1 retrocopy |