RetrogeneDB ID: | retro_btau_1854 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | X:127951963..127952355(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MOSPD3 | ||
| Ensembl ID: | ENSBTAG00000026246 | ||
| Aliases: | None | ||
| Description: | Motile sperm domain-containing protein 3 [Source:UniProtKB/Swiss-Prot;Acc:Q3T033] |
Retrocopy-Parental alignment summary:
>retro_btau_1854
CCTCCTCATCTAGTATTCAGGGTGGGCCAATGGAGTGGACCCTGGTAGCTGTTGACCCTCTATAACCCTATGGGGGCAGT
GCTTCACTTCTGAGGGCTACACACAGCACCTGCCAAAATACAGTGTTTGACATGGAAGGATACGTGAAACCTTAGTCCTG
CACTGACATTGTGATTTGCCAAGTGGCTCCCAATCCCAGTCACTATGATGTCCAGGACCGCTTCCATATTGAGCTCTCTG
AGGAGGGACACAGGGGTGAGTGGTGGGATGCAAGGACATCACCTTGGTTTCTGAGGGCCCCGGTGTACCCCCTTGAGCTT
CAAGGACAGCCTGACCCAATGCCCGACCCAGAGCCTTGGTCCTGGACTGCACCACCCAGGGCCCAGCACTTC
ORF - retro_btau_1854 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.39 % |
| Parental protein coverage: | 55.74 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | PPDLVFRADQRSGPRQLLTLYNPTGAVLRFRVLCTAPAKY-TVFDAEGYVKPQSCIDIVIRHVAPHPRNY |
| PP.LVFR..Q.SGP..LLTLYNP.GAVL.F..L.TAPAK..TVFD.EGYVKP.SC.DIVI..VAP.P..Y | |
| Retrocopy | PPHLVFRVGQWSGPW*LLTLYNPMGAVLHF*GLHTAPAKI<TVFDMEGYVKP*SCTDIVICQVAPNPSHY |
| Parental | DVQDRFRIELSEEG-TEGRVVGRKDITSV-LRAPAYPLELQGQSDPTPHPEPHSWTASSTAQPF |
| DVQDRF.IELSEEG.T.G.VVG.KDIT.V.LRAP.YPLELQGQ.DP.P.PEP.SWTA...AQ.F | |
| Retrocopy | DVQDRFHIELSEEG<TQG*VVGCKDITLV>LRAPVYPLELQGQPDPMPDPEPWSWTAPPRAQHF |
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 | 8 .58 RPM |
| ERP005899_muscle | 0 .00 RPM | 11 .82 RPM |
| SRP017611_brain | 0 .00 RPM | 10 .41 RPM |
| SRP017611_kidney | 0 .00 RPM | 11 .56 RPM |
| SRP017611_liver | 0 .00 RPM | 14 .42 RPM |
| SRP030211_testis | 0 .01 RPM | 10 .07 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1854 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1854 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1854 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000026246 | 1 retrocopy |
retro_btau_1854 ,
|
| Myotis lucifugus | ENSMLUG00000010017 | 1 retrocopy | |
| Oryctolagus cuniculus | ENSOCUG00000005694 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000001396 | 1 retrocopy |