RetrogeneDB ID: | retro_btau_770 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 19:50684206..50684466(+) | ||
| Located in intron of: | ENSBTAG00000003687 | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000047408 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BT.43863 | ||
| Ensembl ID: | ENSBTAG00000021491 | ||
| Aliases: | None | ||
| Description: | NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial [Source:UniProtKB/Swiss-Prot;Acc:P25712] |
Retrocopy-Parental alignment summary:
>retro_btau_770
ATGGTGACCTCCTTTCTACGGCGGCAAAGACGATCCAGCGTACTGAAGACTGTGATTCTAGAAGCTGGAGTGTTCCGAGG
ACTTGCTCCTACAATTTCTCTTTCTGCAGAATCAGGAAAGAATGAAAAGGAATTGCCACCAAATCCCAAGAAGCAAAGTC
CACCAAAAGAGCGCACACCAGCCACTGCCTCTGCTGAGGGGTTTGAGAAAGCACCTTTAAGAATCTCCAGCATCATGATT
ATGGCACATACACCTTCTTA
ORF - retro_btau_770 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.32 % |
| Parental protein coverage: | 78.9 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAASLLLRQGRAGALKTVLLEAGVFRGVAPAVSLSAESGKNEKGLPPNPKKQSPPKKPVSA-APTEPFD- |
| M..S.L.RQ.R...LKTV.LEAGVFRG.AP..SLSAESGKNEK.LPPNPKKQSPPK....A.A..E.F.. | |
| Retrocopy | MVTSFLRRQRRSSVLKTVILEAGVFRGLAPTISLSAESGKNEKELPPNPKKQSPPKERTPATASAEGFE< |
| Parental | NTTYKNLQHHDYSTYTFL |
| ..T.KNLQHHDY.TYTFL | |
| Retrocopy | ESTFKNLQHHDYGTYTFL |
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 | 11 .32 RPM |
| ERP005899_muscle | 0 .00 RPM | 43 .34 RPM |
| SRP017611_brain | 0 .00 RPM | 41 .66 RPM |
| SRP017611_kidney | 0 .00 RPM | 58 .26 RPM |
| SRP017611_liver | 0 .00 RPM | 23 .79 RPM |
| SRP030211_testis | 0 .00 RPM | 38 .40 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_770 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_770 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_770 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 12 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000021491 | 10 retrocopies |
retro_btau_445, retro_btau_769, retro_btau_770 , retro_btau_772, retro_btau_773, retro_btau_774, retro_btau_803, retro_btau_804, retro_btau_805, retro_btau_806,
|
| Canis familiaris | ENSCAFG00000010508 | 1 retrocopy | |
| Callithrix jacchus | ENSCJAG00000015786 | 1 retrocopy |