RetrogeneDB ID: | retro_btau_1193 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 29:22354272..22354653(-) | ||
| Located in intron of: | ENSBTAG00000021654 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CGI-119 | ||
| Ensembl ID: | ENSBTAG00000026993 | ||
| Aliases: | TMBIM4, CGI-119 | ||
| Description: | transmembrane BAX inhibitor motif-containing protein 4 [Source:RefSeq peptide;Acc:NP_001014914] |
Retrocopy-Parental alignment summary:
>retro_btau_1193
TTTTTTAATACCAGATGGACCTTTGTACATGAAAGTCTGGCCTTAATTTTGGTGTTTTCTCTTGGATCTTTTGGTCTGAT
TTCAGCCATGACTTTAAACAGACATAAGCATCCCCTTAGCCCATCCCTGCTCTTTGTATTTATAGTGTTGGAAGCTCTGA
CTGTGGCCTTCATTGTTACTTTCTGTGATGTACATATTGTCCTGCAAGATTGTATACTGACCCATGCAGTATTTCCTGAT
TCAACTGTGTATACTCTGCAGTCTAAGAGAGACTGCAGCAAATTTGGAGCAGGCCTATTTTCTGGTTTGTGGATTTTGTT
CTTGTCAGGAATCTTGAAGGTGTTTTGTTATGGTGAAACAGTGGAGCTGGTCGTGGCTTCT
ORF - retro_btau_1193 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.08 % |
| Parental protein coverage: | 53.36 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | YFDSIRTFVHESPALILVLALGSLGLILALTVNRHKHPLNLYLLFGFTLLESLTVAFVVTFYDVYVVLQA |
| .F....TFVHES.ALILV..LGS.GLI.A.T.NRHKHPL...LLF.F..LE.LTVAF.VTF.DV..VLQ. | |
| Retrocopy | FFNTRWTFVHESLALILVFSLGSFGLISAMTLNRHKHPLSPSLLFVFIVLEALTVAFIVTFCDVHIVLQD |
| Parental | FILTCAVFLGLTVYTLQSKRDFSKFGAGLFAGLWILCLSGILRLFFYSETVELVLAA |
| .ILT.AVF...TVYTLQSKRD.SKFGAGLF.GLWIL.LSGIL..F.Y.ETVELV.A. | |
| Retrocopy | CILTHAVFPDSTVYTLQSKRDCSKFGAGLFSGLWILFLSGILKVFCYGETVELVVAS |
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 | 191 .20 RPM |
| ERP005899_muscle | 0 .00 RPM | 99 .98 RPM |
| SRP017611_brain | 0 .00 RPM | 71 .31 RPM |
| SRP017611_kidney | 0 .00 RPM | 168 .39 RPM |
| SRP017611_liver | 0 .00 RPM | 114 .92 RPM |
| SRP030211_testis | 0 .00 RPM | 224 .04 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1193 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1193 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1193 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000026993 | 1 retrocopy |
retro_btau_1193 ,
|
| Tarsius syrichta | ENSTSYG00000010967 | 3 retrocopies |