RetrogeneDB ID: | retro_btau_1427 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 5:54857832..54858249(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TAZ | ||
| Ensembl ID: | ENSBTAG00000007456 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_btau_1427
ATGCCCCTCCACGTGAAATGGCCGTTCCCCGCGGTGCCGCCGCTCACCTGGACCCTGGCCAGCAGCGTCGTCATGGGCCT
GGTGGGCACCTACAGCTGCTTCTGGACCAAGTGCATGAACCACCTCACCGTCCACAACAAGGAGGTGCTGTACGATCTCA
TTGAGAACCGAGGCCCAGCCACACCCCTCATCATGGTCTCCAATCACCAGTCGTGCATGGATGACCCTCATCTCTGGGGG
ATCCTGAAACTCCGTCATATCTGGAACCTGAAGTTGATGCGTTGGACCCCCACAGCTGCAGACATCTGCTTCACCAAGGA
GCTGCACCCACACTTCTTCAGCTTGGGCAAGTGTGTGCCCGTGTGCCGAGGAGATGGTGTCTACCAGAAGGGAATGGATT
TCATTTTGGAGAAGCTC
ORF - retro_btau_1427 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.84 % |
| Parental protein coverage: | 53.26 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MPLHVKWPFPAVPPLTWTLASSVVMGLVGTYSCFWTKCMNHLTVHNKEVLYELIENRGPATPLITVSNHQ |
| MPLHVKWPFPAVPPLTWTLASSVVMGLVGTYSCFWTKCMNHLTVHNKEVLY.LIENRGPATPLI.VSNHQ | |
| Retrocopy | MPLHVKWPFPAVPPLTWTLASSVVMGLVGTYSCFWTKCMNHLTVHNKEVLYDLIENRGPATPLIMVSNHQ |
| Parental | SCMDDPHLWGILKLRHIWNLKLMRWTPTAADICFTKELHSHFFSLGKCVPVCRGDGVYQKGMDFILEKL |
| SCMDDPHLWGILKLRHIWNLKLMRWTPTAADICFTKELH.HFFSLGKCVPVCRGDGVYQKGMDFILEKL | |
| Retrocopy | SCMDDPHLWGILKLRHIWNLKLMRWTPTAADICFTKELHPHFFSLGKCVPVCRGDGVYQKGMDFILEKL |
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 | 5 .05 RPM |
| ERP005899_muscle | 0 .00 RPM | 5 .33 RPM |
| SRP017611_brain | 0 .00 RPM | 8 .54 RPM |
| SRP017611_kidney | 0 .00 RPM | 8 .42 RPM |
| SRP017611_liver | 0 .00 RPM | 6 .64 RPM |
| SRP030211_testis | 0 .00 RPM | 5 .53 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1427 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1427 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1427 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000007456 | 1 retrocopy |
retro_btau_1427 ,
|
| Macropus eugenii | ENSMEUG00000012657 | 2 retrocopies | |
| Sarcophilus harrisii | ENSSHAG00000001896 | 1 retrocopy |