RetrogeneDB ID: | retro_ecab_653 | ||
Retrocopylocation | Organism: | Horse (Equus caballus) | |
Coordinates: | 25:16949180..16949772(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RPL13A | ||
Ensembl ID: | ENSECAG00000015832 | ||
Aliases: | None | ||
Description: | ribosomal protein L13a [Source:HGNC Symbol;Acc:10304] |
Percent Identity: | 61.06 % |
Parental protein coverage: | 98.52 % |
Number of stop codons detected: | 5 |
Number of frameshifts detected | 7 |
Parental | GQVLVLDGRGHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKLKYLAFLRKRMNTNPSRGPYHF |
GQVLVLD..GHL.G.LAA..AKQ..LG..VVVVRCEGINIS.NF.RN..KYLAF..KRM..N.S.G.YHF | |
Retrocopy | GQVLVLDDPGHLPGYLAAVIAKQFPLGWEVVVVRCEGINISVNFHRNR*KYLAFV*KRMIANLSCGSYHF |
Parental | RAPSRIFWRTVRGMLPH-KTKRGQAAL-DRLKVFDGIPPPYDKK-KRMVVPAALKVVRLKP-TR-KFAYL |
..PSRI.W......LP..KTK..QA.L..R.K.FDG.......K..R.V..A.LK..RL.P.TR..FA.. | |
Retrocopy | QTPSRISW-AMPSRLPR<KTKSSQATL<ERFKAFDGAAAL*QEK>QRVVPAA-LKAMRLNP<TR<NFA*I |
Parental | GRLAHEVGWKYQAVTATLEEK-RKEKAK-IHYRKKKQLTRLRKQAEKNVEKKIDRYT-EVLKTHGLLV |
GRLAHEVGWK.QAVTATLEEK..KEKA..I.Y....QL...RKQA.KN..KK.D.Y..EVLKT.GLLV | |
Retrocopy | GRLAHEVGWKNQAVTATLEEK<GKEKAR<IRYQQEEQLRSPRKQAKKNAQKKTD*YSPEVLKTLGLLV |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP021940_articular_cartilage | 0 .00 RPM | 1340 .63 RPM |
SRP021940_cerebellum | 0 .05 RPM | 377 .08 RPM |
SRP021940_embryo | 0 .33 RPM | 895 .50 RPM |
SRP021940_placental_villous | 0 .19 RPM | 582 .96 RPM |
SRP021940_synovial_membrane | 0 .16 RPM | 852 .14 RPM |
SRP021940_testis | 0 .26 RPM | 357 .57 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000005296 | 3 retrocopies | |
Canis familiaris | ENSCAFG00000029892 | 3 retrocopies | |
Callithrix jacchus | ENSCJAG00000000072 | 16 retrocopies | |
Equus caballus | ENSECAG00000015832 | 3 retrocopies |
retro_ecab_388, retro_ecab_653 , retro_ecab_773,
|
Echinops telfairi | ENSETEG00000017076 | 2 retrocopies | |
Gorilla gorilla | ENSGGOG00000002932 | 11 retrocopies | |
Loxodonta africana | ENSLAFG00000016213 | 3 retrocopies | |
Macaca mulatta | ENSMMUG00000007551 | 14 retrocopies | |
Mus musculus | ENSMUSG00000074129 | 3 retrocopies | |
Oryctolagus cuniculus | ENSOCUG00000025258 | 9 retrocopies | |
Otolemur garnettii | ENSOGAG00000004625 | 7 retrocopies | |
Pongo abelii | ENSPPYG00000010251 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000011298 | 1 retrocopy | |
Pteropus vampyrus | ENSPVAG00000010958 | 3 retrocopies | |
Rattus norvegicus | ENSRNOG00000020618 | 10 retrocopies | |
Sus scrofa | ENSSSCG00000003166 | 4 retrocopies |