RetrogeneDB ID: | retro_cfam_2167 | ||
Retrocopylocation | Organism: | Dog (Canis familiaris) | |
Coordinates: | X:59085531..59086342(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSCAFG00000017231 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | TPM1 | ||
Ensembl ID: | ENSCAFG00000016966 | ||
Aliases: | None | ||
Description: | tropomyosin 1 (alpha) [Source:HGNC Symbol;Acc:12010] |
Percent Identity: | 82.05 % |
Parental protein coverage: | 83.13 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 2 |
Parental | ERDRVLEELHSAEDSLLAADETAA-KLEDELVSLQKKLKGTEDELDKYSEALK-DAQEKLELAEKKATDA |
.....L.....AE....AA.......LEDELVSLQKKLKGTEDELDKYSEA.K.DAQEKLELAEKKATDA | |
Retrocopy | DKKNALDRAEQAEADKRAAEDRSK<ELEDELVSLQKKLKGTEDELDKYSEAVK<DAQEKLELAEKKATDA |
Parental | EADVASLNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEA |
EADV.SLNRRIQLVEEELDRAQERL.TALQKLEEAEKA.DES.RGMKVIESRAQKDEEKMEIQEIQLKEA | |
Retrocopy | EADVPSLNRRIQLVEEELDRAQERLTTALQKLEEAEKAVDESKRGMKVIESRAQKDEEKMEIQEIQLKEA |
Parental | KHIAEDADRKYEEVARKLVIIESDLERAEERAELSESKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKY |
KHIAEDA.RKYEEVA.KLVIIESDLER.EERAELSES....LEE.L......LK.L.A...KYSQKEDKY | |
Retrocopy | KHIAEDANRKYEEVAHKLVIIESDLERVEERAELSESQVRQLEEQLRIMDQTLKALMAAEDKYSQKEDKY |
Parental | EEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEEKVAHAKEENLSMHQMLDQTLLELNNM |
EEEIKVLSDKLKEAETRAEFAERS.TK.EKSIDDLE.KVAHAKEENLSMHQMLDQTLLELNNM | |
Retrocopy | EEEIKVLSDKLKEAETRAEFAERSITKSEKSIDDLEKKVAHAKEENLSMHQMLDQTLLELNNM |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP012049_cerebellum | 0 .63 RPM | 120 .58 RPM |
SRP017611_brain | 0 .79 RPM | 103 .37 RPM |
SRP017611_kidney | 14 .59 RPM | 141 .85 RPM |
SRP017611_liver | 6 .60 RPM | 73 .67 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Canis familiaris | ENSCAFG00000015796 | 1 retrocopy | |
Canis familiaris | ENSCAFG00000016966 | 1 retrocopy |
retro_cfam_2167 ,
|
Canis familiaris | ENSCAFG00000017311 | 4 retrocopies | |
Choloepus hoffmanni | ENSCHOG00000012788 | 11 retrocopies | |
Callithrix jacchus | ENSCJAG00000004355 | 2 retrocopies | |
Macropus eugenii | ENSMEUG00000014581 | 2 retrocopies | |
Pongo abelii | ENSPPYG00000006534 | 1 retrocopy | |
Rattus norvegicus | ENSRNOG00000018184 | 1 retrocopy | |
Ictidomys tridecemlineatus | ENSSTOG00000009955 | 1 retrocopy | |
Tursiops truncatus | ENSTTRG00000003762 | 1 retrocopy | |
Vicugna pacos | ENSVPAG00000003277 | 1 retrocopy |