RetrogeneDB ID: | retro_sscr_134 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | 1:202465138..202466087(+) | ||
Located in intron of: | ENSSSCG00000027537 | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | DNAJA1 | ||
Ensembl ID: | ENSSSCG00000011000 | ||
Aliases: | None | ||
Description: | DnaJ (Hsp40) homolog, subfamily A, member 1 [Source:HGNC Symbol;Acc:5229] |
Percent Identity: | 88.4 % |
Parental protein coverage: | 80.1 % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 1 |
Parental | GFGSPMDIFDMFFGGGGRMQ-RERRGKNVVHQLSVTLEDLYNGATRKLALQKNVICDKCEGRGGKKGAVE |
G.GSPMDIFDM.F.GG.....RERRGKNVVHQLSVTLEDL.NGATRKLALQKNVIC.KCEG.GGKKGAVE | |
Retrocopy | GSGSPMDIFDM-FFGGEGRM>RERRGKNVVHQLSVTLEDLCNGATRKLALQKNVICGKCEGQGGKKGAVE |
Parental | CCPNCRGTGMQIRIHQIGPGMVQQIQSVCMECQGHGERISPKDRCKSCNGRKIVREKKILEVHIDKGMKD |
CCP.CRGTGMQIRIHQIG.GMVQQIQ.VCMECQGHGE.ISPKDRCKSCNGRKIV.EKKILEVHIDK.MKD | |
Retrocopy | CCPSCRGTGMQIRIHQIGSGMVQQIQPVCMECQGHGEQISPKDRCKSCNGRKIV*EKKILEVHIDKDMKD |
Parental | GQKITFHGEGDQEPGLEPGDIIIVLDQKDHAVFTRRGEDLFMCMDIQLVEALCGFQKPISTLDNRTIVIT |
GQKITFHGEGDQEPGLEPG.IIIVLDQKDHAVF..RGEDLFMCMDIQLVEALC.FQKP.S.LDN.T.VIT | |
Retrocopy | GQKITFHGEGDQEPGLEPGNIIIVLDQKDHAVFSQRGEDLFMCMDIQLVEALCDFQKPVSILDNGTTVIT |
Parental | SHPGQIVKHGDIKCVLNEGMPIYRRPYEKGRLIIEFKVNFPENGFLSPDKLSLLEKLLPERKEVEETDEM |
SH.GQ.VKHGDI.CVLNEGMPIYRRPYEKG.LI.EFKVNFPENGFLSP.KLSLLEKLLPERKE.EETDEM | |
Retrocopy | SHSGQTVKHGDIECVLNEGMPIYRRPYEKGHLITEFKVNFPENGFLSPNKLSLLEKLLPERKEAEETDEM |
Parental | DQVELVDFDPNQERRRHYNGEAYEDDEHHPRGGVQCQTS |
DQVELVD.DPNQER.R..NG.AYEDDEHHPRGGVQCQTS | |
Retrocopy | DQVELVDLDPNQER*RLCNG-AYEDDEHHPRGGVQCQTS |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP014902_placenta | 0 .00 RPM | 39 .02 RPM |
SRP014902_testis | 0 .14 RPM | 277 .66 RPM |
SRP018288_heart | 0 .13 RPM | 136 .97 RPM |
SRP018288_kidney | 0 .20 RPM | 262 .62 RPM |
SRP018288_liver | 0 .48 RPM | 300 .31 RPM |
SRP018288_lung | 0 .31 RPM | 178 .91 RPM |
SRP018856_adipose | 0 .00 RPM | 183 .71 RPM |
SRP035408_brain | 0 .03 RPM | 524 .43 RPM |
SRP035408_liver | 0 .03 RPM | 143 .08 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000007589 | 4 retrocopies | |
Canis familiaris | ENSCAFG00000001818 | 23 retrocopies |
retro_cfam_1111, retro_cfam_1153, retro_cfam_1218, retro_cfam_1229, retro_cfam_1315, retro_cfam_1352, retro_cfam_1420, retro_cfam_1457, retro_cfam_1520, retro_cfam_1668, retro_cfam_1833, retro_cfam_1941, retro_cfam_1949, retro_cfam_1994, retro_cfam_2004, retro_cfam_2162, retro_cfam_352, retro_cfam_391, retro_cfam_419, retro_cfam_749, retro_cfam_751, retro_cfam_923, retro_cfam_993,
|
Felis catus | ENSFCAG00000008729 | 5 retrocopies | |
Gorilla gorilla | ENSGGOG00000007030 | 3 retrocopies | |
Macaca mulatta | ENSMMUG00000007740 | 6 retrocopies | |
Monodelphis domestica | ENSMODG00000003384 | 7 retrocopies | |
Nomascus leucogenys | ENSNLEG00000005268 | 4 retrocopies | |
Oryctolagus cuniculus | ENSOCUG00000004833 | 2 retrocopies | |
Sarcophilus harrisii | ENSSHAG00000012366 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000011000 | 2 retrocopies |
retro_sscr_134 , retro_sscr_984,
|