RetrogeneDB ID: | retro_btau_747 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 19:3674944..3675244(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ITGB3BP | ||
| Ensembl ID: | ENSBTAG00000030710 | ||
| Aliases: | None | ||
| Description: | centromere protein R [Source:RefSeq peptide;Acc:NP_001073087] |
Retrocopy-Parental alignment summary:
>retro_btau_747
AAGAGGGAAAACTTGAATCACCTCAGTATAAACAAGAGAATGGAATCTACTATGCAAGACAATGAATTCATGGTGTTGCT
ATCTAAAGTTGAAAAATCATCAGAAGAATTCATGGAAATAATGCAAAATTTAAGTAGTATACAGGATTTGAAGGGCAGTA
AAGAGCTTGAAAATCTCATTGGTATCCCCCATGCATCATGTGTCTTTAAAAGAGAAATGCAGAAAACAAAAGAACTAATG
ACTAACATAATAAAGCAAAAACTATTTAAAAAGAAGAATTCAGGACTTCCCAACAAAGGA
ORF - retro_btau_747 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 96.0 % |
| Parental protein coverage: | 61.35 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | KRENLNHLSINKRMESTMQDNEFMVLLSKVEKSSEEFMEIMQNLSSIQALKGSKELENLIGIPHASCVFK |
| KRENLNHLSINKRMESTMQDNEFMVLLSKVEKSSEEFMEIMQNLSSIQ.LKGSKELENLIGIPHASCVFK | |
| Retrocopy | KRENLNHLSINKRMESTMQDNEFMVLLSKVEKSSEEFMEIMQNLSSIQDLKGSKELENLIGIPHASCVFK |
| Parental | REMQKTKKLMTKVIKQKLFKKKNSGLPNKG |
| REMQKTK.LMT..IKQKLFKKKNSGLPNKG | |
| Retrocopy | REMQKTKELMTNIIKQKLFKKKNSGLPNKG |
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 .07 RPM | 4 .04 RPM |
| ERP005899_muscle | 0 .00 RPM | 2 .01 RPM |
| SRP017611_brain | 0 .00 RPM | 3 .38 RPM |
| SRP017611_kidney | 0 .00 RPM | 3 .85 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .53 RPM |
| SRP030211_testis | 0 .03 RPM | 17 .20 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_747 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_747 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_747 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 5 parental genes, and 7 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000030710 | 1 retrocopy |
retro_btau_747 ,
|
| Callithrix jacchus | ENSCJAG00000016555 | 3 retrocopies | |
| Mus musculus | ENSMUSG00000028549 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000009116 | 1 retrocopy | |
| Tursiops truncatus | ENSTTRG00000007480 | 1 retrocopy |