RetrogeneDB ID: | retro_btau_1472 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 6:106521638..106521911(+) | ||
| Located in intron of: | ENSBTAG00000005711 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C1ORF130 | ||
| Ensembl ID: | ENSBTAG00000012604 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_btau_1472
ACCTCATTCCCACGGACCATGACCCCTAGGGGAGAAGACTTTGTGTACGAGACTTCTGGAGCCATTGCTGCTGCCATCGT
GGTGGCCTGTCATCATCGCCACTGAGGTTCTGATCCTGCCGAAGAGGTATAGCAGGACAACGAGGGCGAGACGGGAGATG
GAGGCCCTGGGCCCCGAGCCAGCCGCCCCTCCTGCCCTGGGCCCAAAAAGCCACAGCAGCCGGCACCCACTGCTGCAACC
CTGAGCCCTGCAGACATCCAGGTGGGGACTCGG
ORF - retro_btau_1472 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 57.45 % |
| Parental protein coverage: | 90.2 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | TIFSLNMTTRGEDFLYKSSGAIIAAVVVI-VIIIFTVVLILLKMYNRKMRTRRELEPKGPKPASPSALGA |
| T.F...MT.RGEDF.Y..SGAI.AA.VV..VII..T.VLIL.K.Y.R..R.RRE.E..GP.PA.P.ALG. | |
| Retrocopy | TSFPRTMTPRGEDFVYETSGAIAAAIVVA>VIIA-TEVLILPKRYSRTTRARREMEALGPEPAAPPALGP |
| Parental | NSNSSQQ-PATVTFSPVDIHVETR |
| .S.SS...P...T.SP.DI.V.TR | |
| Retrocopy | KSHSSRH<PTAATLSPADIQVGTR |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 0 .00 RPM |
| ERP005899_muscle | 0 .00 RPM | 0 .32 RPM |
| SRP017611_brain | 0 .00 RPM | 1 .42 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .24 RPM |
| SRP017611_liver | 0 .00 RPM | 1 .13 RPM |
| SRP030211_testis | 0 .09 RPM | 0 .08 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1472 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1472 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1472 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000012604 | 1 retrocopy |
retro_btau_1472 ,
|
| Echinops telfairi | ENSETEG00000006813 | 1 retrocopy |