RetrogeneDB ID: | retro_ptro_3171 | ||
Retrocopylocation | Organism: | Chimpanzee (Pan troglodytes) | |
Coordinates: | X:137554105..137554629(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RAB28 | ||
Ensembl ID: | ENSPTRG00000015920 | ||
Aliases: | None | ||
Description: | RAB28, member RAS oncogene family [Source:UniProtKB/TrEMBL;Acc:K7BAC3] |
Percent Identity: | 79.56 % |
Parental protein coverage: | 90.82 % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 3 |
Parental | QTIGLDFF-LRRITLPGNLNVTL-QIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTV |
QTIGLDFF.LRRITLPGNLNVTL...WD.GGQTIG.KMLD..IYGAQ...LVY.I....S....E..... | |
Retrocopy | QTIGLDFF<LRRITLPGNLNVTL<LVWDTGGQTIGSKMLDRSIYGAQEIILVYGI---MSYQSFENF*KI |
Parental | -VKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILG |
.VKKVSEESETQPLV.LVGNKIDLEH.RT.KPEKHLRFCQENGF.SHFVSAK..DSVFLCFQKV.AEILG | |
Retrocopy | >VKKVSEESETQPLVTLVGNKIDLEHNRTVKPEKHLRFCQENGFNSHFVSAKARDSVFLCFQKVVAEILG |
Parental | IKLNKAEIEQSQRVVKADIVNYNQEPMSRTVNPPRSSMCAV |
IKLNKAEIEQSQRVVKADIVNYNQEPM.R.VNP.RSS.CAV | |
Retrocopy | IKLNKAEIEQSQRVVKADIVNYNQEPMARAVNPSRSSVCAV |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain_prefrontal_cortex | 1 .68 RPM | 14 .32 RPM |
SRP007412_cerebellum | 1 .40 RPM | 14 .84 RPM |
SRP007412_heart | 0 .55 RPM | 11 .48 RPM |
SRP007412_kidney | 0 .68 RPM | 12 .97 RPM |
SRP007412_liver | 0 .07 RPM | 5 .37 RPM |
SRP007412_testis | 0 .00 RPM | 62 .39 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Choloepus hoffmanni | ENSCHOG00000001523 | 1 retrocopy | |
Callithrix jacchus | ENSCJAG00000012136 | 2 retrocopies | |
Dasypus novemcinctus | ENSDNOG00000007750 | 4 retrocopies | |
Dipodomys ordii | ENSDORG00000012378 | 1 retrocopy | |
Homo sapiens | ENSG00000157869 | 7 retrocopies | |
Gorilla gorilla | ENSGGOG00000024190 | 1 retrocopy | |
Macropus eugenii | ENSMEUG00000006792 | 4 retrocopies | |
Macaca mulatta | ENSMMUG00000022025 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000016243 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000014610 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000015920 | 2 retrocopies |
retro_ptro_2893, retro_ptro_3171 ,
|
Rattus norvegicus | ENSRNOG00000017074 | 1 retrocopy | |
Sarcophilus harrisii | ENSSHAG00000009274 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000022358 | 2 retrocopies | |
Ictidomys tridecemlineatus | ENSSTOG00000004135 | 1 retrocopy | |
Tarsius syrichta | ENSTSYG00000010939 | 2 retrocopies |