RetrogeneDB ID: | retro_btau_1224 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 3:50484426..50484689(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSBTAG00000033759 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_btau_1224
ATGTCTCTCTTCTCATCATAGATCAAAGTTATTTTCATCATTTCTTTGGCATTTCCTCTTTATTCTGAAACTGCTTTGCA
CCTTCAAGAGACACATGCAAAATGCAAGACTGTAATGTATAAGTAAGCAATTACATTTTTGCATCAGAGAAATGGATCCA
ATCTGTATAACCAATGTCTAAATTTCTTCCAAAAAACGCATTTTCTGCAGTGAAAAGCTAGAAAATAGTAGAGAATTTGA
AATTCAGTCTTTATGGTAATTGC
ORF - retro_btau_1224 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.26 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | MSFFSSWIKAILIIGLAFPLYCETS-FASSRKMREMREAPECSIYI-RQLHFCSREMDPVCATNGKTYSN |
| MS.FSS.IK.I.II.LAFPLY.ET..FA.SR....M.....C......QLHFC.REMDP.C.TN....S. | |
| Retrocopy | MSLFSS*IKVIFIISLAFPLYSETA<FAPSRDTCKMQD---CNV*V<KQLHFCIREMDPICITNV*ISSK |
| Parental | KCVFCSEKIEDGR-FD-FSHWGRC |
| K..FCSEK.E..R.F..FS..G.C | |
| Retrocopy | KRIFCSEKLENSREFE>FSLYGNC |
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 | 0 .00 RPM |
| ERP005899_muscle | 0 .00 RPM | 0 .00 RPM |
| SRP017611_brain | 0 .05 RPM | 0 .00 RPM |
| SRP017611_kidney | 0 .06 RPM | 0 .06 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
| SRP030211_testis | 0 .07 RPM | 8 .14 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1224 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1224 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1224 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000033759 | 1 retrocopy |
retro_btau_1224 ,
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