RetrogeneDB ID: | retro_btau_549 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 14:64564493..64565158(+) | ||
| 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: | ENSBTAG00000036115 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_btau_549
TTACAAACCTACTATAAATCAAATTCCAAACAGGCCATCCCCAACTTTTAGTAAGAATGCAAAGAAGACTTGGAATTAAC
AATGTGTCTCTAATATCTTAATTAGTTCAAGATAACAAGACGTATGTTAACGCAAGGGTCAACAAAGATGATCATAACTC
TGACTTTCTTCGAGAAACGCGTGGAGAGAGTGCATTTTCAGCCTCCAGAACTTTAAATGTGCCATACATACCAAAGCCTC
ATAGCAGCCAGATATTTGCTAATACAAGCGCTGTAAGTCCATGTGACTTACCTTCCCCATCACCAATATCACTTAGACAA
ACAGACCAGATTGTAGTAGATCAACCTGCTGTTTTTAAAACACTGAGCATTTTTAATTGGCACTCACATAGCAGCTACAC
TCAGGTAAATGGCCACGTTGAGGACTTCGCTACTACAACTACATCTACTTCTCAAAACCACATTGTGTCTCCATTACAAA
GCAGTTATTCCAGACTGATGGTGGAATCTTCTAAATTTCCAGTCACATATAGCAATATGTCACCACATGACAGCCCTTTT
CCTATCCTGCAAGAGACAGGCAACTCATGGTCCTCAATGTCAATGATCACTTATACATCTGCCTCCTCTCTTTCAAGTCA
ACTGATCAACAATCATCATCAGATG
ORF - retro_btau_549 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.56 % |
| Parental protein coverage: | 54.11 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LQTYYKSNSKQ-GHPQLLVRMQRRLGINNVSLISSLVQDNKTYVKARVNKDDHNSDFLRETSGESAFSAS |
| LQTYYKSNSKQ.GHPQLLVRMQRRLGINNVSLIS.LVQDNKTYV.ARVNKDDHNSDFLRET.GESAFSAS | |
| Retrocopy | LQTYYKSNSKQ<GHPQLLVRMQRRLGINNVSLIS*LVQDNKTYVNARVNKDDHNSDFLRETRGESAFSAS |
| Parental | RTLNVPYIPKPHSSQIFDNTSAVSPCDLPSPSPISLRQTDQIVVDQPAVFKTLSIFNWHSHSSYTQVNGH |
| RTLNVPYIPKPHSSQIF.NTSAVSPCDLPSPSPISLRQTDQIVVDQPAVFKTLSIFNWHSHSSYTQVNGH | |
| Retrocopy | RTLNVPYIPKPHSSQIFANTSAVSPCDLPSPSPISLRQTDQIVVDQPAVFKTLSIFNWHSHSSYTQVNGH |
| Parental | VEDFATTTTSTSQNHIVSPLQSSYSGLMVESSKFPVTYSNINMSAHDSPFPILQETGNSWSSMSMIAYTS |
| VEDFATTTTSTSQNHIVSPLQSSYS.LMVESSKFPVTYS..NMS.HDSPFPILQETGNSWSSMSMI.YTS | |
| Retrocopy | VEDFATTTTSTSQNHIVSPLQSSYSRLMVESSKFPVTYS--NMSPHDSPFPILQETGNSWSSMSMITYTS |
| Parental | ASSLSSQLINNHHQM |
| ASSLSSQLINNHHQM | |
| Retrocopy | ASSLSSQLINNHHQM |
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 .00 RPM | 0 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
| SRP030211_testis | 0 .09 RPM | 0 .08 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_549 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_549 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_549 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000036115 | 3 retrocopies |
retro_btau_549 , retro_btau_681, retro_btau_748,
|