RetrogeneDB ID: | retro_btau_1032 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 23:33569436..33570001(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000039810 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MRAS | ||
| Ensembl ID: | ENSBTAG00000001497 | ||
| Aliases: | None | ||
| Description: | ras-related protein M-Ras [Source:RefSeq peptide;Acc:NP_001091587] |
Retrocopy-Parental alignment summary:
>retro_btau_1032
GGGTGGGGAGGTATGCGCAAGAGCGCCCTCACCATTCAGCTTTTACAGAAGATCTTTGTGCCTGACTACAACCCCACCAT
CCAAGACGCTTTCCTGAAACATACAAATATTGACAATCAATGGGCCATCTTGGACGTTCTGGACACGGCCCAACAGGAGG
AGTTCAGCACCTTCCGGGAGCAGTACATGCTCACAGGGGACGGCTTCCCCATCGTCTTCTCGGTCACGGACAAGGCCACC
TTCGAGCACATGGACTACTTCCACCAGCTCATCCTGCGCGTCAAGGACAGGGAGTCATTCCCGATGATCCTCATGGTCAA
AAGGTCGATCTGATTCATTTGAGGAAAATCACCAGGGAGCAAGGAAAAGAAATGGCGACCAAACACAATATTCCATATAT
AGAAACCAGTGCCAAGGACCCACCTCTCAACGTTGACGAAGCCTTCCATGACCTGGTTAGAGTAATTAGGCAACAGATTC
TGGGAAAAAAAGCCAGACGAAGAAGAAGAAAACCAAACGTTGGGGAGACCAGGTCACGAGCACCCACAAACTGCAGTGCG
TGATA
ORF - retro_btau_1032 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.58 % |
| Parental protein coverage: | 90.38 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | GDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFL |
| G.GG..KSALTIQ..QKIFVPDY.PTI.D..LKHT.IDNQWAILDVLDTA.QEEFS..REQYM.TGDGF. | |
| Retrocopy | GWGGMRKSALTIQLLQKIFVPDYNPTIQDAFLKHTNIDNQWAILDVLDTAQQEEFSTFREQYMLTGDGFP |
| Parental | IVFSVTDKASFEHVDRFHQLILRVKDRESFPMILV-ANKVDLMHLRKITREQGKEMATKHNIPYIETSAK |
| IVFSVTDKA.FEH.D.FHQLILRVKDRESFPMIL....KVDL.HLRKITREQGKEMATKHNIPYIETSAK | |
| Retrocopy | IVFSVTDKATFEHMDYFHQLILRVKDRESFPMILM<GQKVDLIHLRKITREQGKEMATKHNIPYIETSAK |
| Parental | DPPLNVDKAFHDLVRVIRQQI-PEKSQKKKKK-TKWRGDRATGTHKLQCVI |
| DPPLNVD.AFHDLVRVIRQQI...K......K.TK..GD..T.THKLQCVI | |
| Retrocopy | DPPLNVDEAFHDLVRVIRQQILGKKARRRRRK<TKRWGDQVTSTHKLQCVI |
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 | 12 .98 RPM |
| ERP005899_muscle | 0 .00 RPM | 12 .93 RPM |
| SRP017611_brain | 0 .00 RPM | 231 .69 RPM |
| SRP017611_kidney | 0 .00 RPM | 31 .65 RPM |
| SRP017611_liver | 0 .00 RPM | 17 .52 RPM |
| SRP030211_testis | 0 .08 RPM | 23 .50 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1032 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1032 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1032 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000001497 | 1 retrocopy |
retro_btau_1032 ,
|
| Bos taurus | ENSBTAG00000011905 | 1 retrocopy | |
| Latimeria chalumnae | ENSLACG00000016958 | 1 retrocopy |