RetrogeneDB ID: | retro_btau_1569 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 7:39765824..39767492(-) | ||
| Located in intron of: | ENSBTAG00000001707 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | LACTB | ||
| Ensembl ID: | ENSBTAG00000017373 | ||
| Aliases: | None | ||
| Description: | Serine beta-lactamase-like protein LACTB, mitochondrial [Source:UniProtKB/Swiss-Prot;Acc:P83095] |
Retrocopy-Parental alignment summary:
>retro_btau_1569
ATGTACCGGCTTCTGTCAGCCGTGATGGCCAGAGCCGCGACCACCGGGGGCTGCGCCTGGGGCTGTGGGTGGCGTGCGGC
TCATCAGCGCGCCGGGCTGCCGCCACTCGGCCCCGGGTGGGTCGGGGGCCTCGGACTGGGGCTGGGGCTGGCACTTGGGG
TTAAGCTGGCCGGCGGGCTGAGGGGCGCATCCCCCGCGCCACCTGCCGCGGCCCCCGACCCTGAGGCGCTGCCTCAGGCC
GAGCCGCTACAGGCACAGGAACAGCCCCTCGCCCCGTGGTCTCCGCAGACCCCGGCGCCGCCGCAAGCCAGGCACTTCGC
CAGAGCCATCGACAGCAGCCGCGACCTCCTGCACAGGATCAAGGATGAGGTGGGCGCACCGGACATCGTAGTTGGAGTCT
CTGTAGATGGAAAAGAAGTCTGGTCAGAAGGTTTAGGTTATGCTGACGTTGAGAACCGTGTACCATGCAAGCCAGAGACA
GTTATGAGAATTGCCAGTATCAGCAAAAGCCTCACCATGGTTGCTATTGCCAAACTGTGGGAAGCAGGGAAACTGGATCT
TGATATTCCAGTACAACATTATGTTCCTGAATTCCCAGAAAAAGAATATGAAGGTGAAAAGGTGTCTGTCACAACAAGAT
TATTGATTTCCCATTTAAGAGGAATTCGTCATTATGAAAAGGACATGAAAAAGGTGAAAGAAGAGAAAGCTTATAAAGCC
TTAAAGATGATGAAAGGGATGATGGAATCTGACCAAGAAAAAGAGTTAAAAGAAAAAGGAGGCAAAAGTAACGAAAAGAA
TGACTTTGCTAAAGCTAAGGTAGAGCAAGATAATGAAACCAAAGGCCGAAATTCAAAACCTTGCAAGAAAAAGAATGATT
TTGAACAAGGTGAATTATATTTGAAAGAAAAATTTGAAAATTCAATTGAATCTCTAAGATTATTTAAAAATGACCCTTTG
TTCTTCAAACCTGGTAGTCAGTTTTTGTATTCAACTTTTGGCTATACCCTACTGGCAGCCATAGTAGAAAGAGCTTCAGG
ATATAAATATTTGGACTATATGCAGAAAATATTCCATGACTTGGATATGCTGACAACTGTGCAGGAGGAAAATGAGCCAG
TGATTTACAATAGAGCAAGATTTTATGTTTACAATAAAAAGAAACGCCTTGTCAACACACCTTACGTGGATAACTCCTAT
AAATGGGCTGGTGGTGGATTTCTGTCTACAGTGGGTGACCTTCTGAAATTTGGGAATGCGATGCTGTATGGTTACCAAGT
CGGGCTGTTTAAGAACGCAAATGAAAATCTTTTACCTGGATATCTTAAACCGGAAACAATGCTGATGATTTGGACACCAG
TCCCTAACACAGAGATGTCTTGGGATAAAGAGGGTAAATATGCAATGGCCTGGGGCGTGGTGGAAAAGAAGCAGACATAC
GGTTCTTGCAGGAAGCAGCGGCATTATGCCTCATACACTGGAGGCGCAGTGGGTGCCAGTAGTGTCCTGCTGGTCCTTCC
TGAAGAACTGGACGCAGAAGCGCTAAATAACAAGGTCCCCCCAAGAGGAATAGTTGTTTCTATCATATGTAACATGCAGT
CTGTTGGCCTCAACAGCACTGTTTTAAAGATTGCTCTGGAATTTGATAAAGACAGATCAGACGTACCT
ORF - retro_btau_1569 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.38 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MYRLLSAVMARAATTGGCAWGCGRRAAHQRAGLPPLGPGWVGGLGLGLGLALGVKLAGGLRGASPAPPAA |
| MYRLLSAVMARAATTGGCAWGCG.RAAHQRAGLPPLGPGWVGGLGLGLGLALGVKLAGGLRGASPAPPAA | |
| Retrocopy | MYRLLSAVMARAATTGGCAWGCGWRAAHQRAGLPPLGPGWVGGLGLGLGLALGVKLAGGLRGASPAPPAA |
| Parental | APDPEALPQAEPLQAQEQPLAPWSPQTPAPPHTRHFARAIDSSRDLLHRIKDEVGAPGIVVGVSVDGKEV |
| APDPEALPQAEPLQAQEQPLAPWSPQTPAPP..RHFARAIDSSRDLLHRIKDEVGAP.IVVGVSVDGKEV | |
| Retrocopy | APDPEALPQAEPLQAQEQPLAPWSPQTPAPPQARHFARAIDSSRDLLHRIKDEVGAPDIVVGVSVDGKEV |
| Parental | WSEGLGYADVENRVPCKPETVMRIASISKSLTMVAIAKLWEAGKLDLDIPVQHYVPEFPEKEYEGEKVSV |
| WSEGLGYADVENRVPCKPETVMRIASISKSLTMVAIAKLWEAGKLDLDIPVQHYVPEFPEKEYEGEKVSV | |
| Retrocopy | WSEGLGYADVENRVPCKPETVMRIASISKSLTMVAIAKLWEAGKLDLDIPVQHYVPEFPEKEYEGEKVSV |
| Parental | TTRLLISHLSGIRHYEKDMKKVKEEKAYKALKMMKEMMESDQEKELKEKGGKSNEKNDFAKAKVEQDNET |
| TTRLLISHL.GIRHYEKDMKKVKEEKAYKALKMMK.MMESDQEKELKEKGGKSNEKNDFAKAKVEQDNET | |
| Retrocopy | TTRLLISHLRGIRHYEKDMKKVKEEKAYKALKMMKGMMESDQEKELKEKGGKSNEKNDFAKAKVEQDNET |
| Parental | KGRNSKPCKKKNDFEQGELYLKEKFENSIESLRLFKNDPLFFKPGSQFLYSTFGYTLLAAIVERASGYKY |
| KGRNSKPCKKKNDFEQGELYLKEKFENSIESLRLFKNDPLFFKPGSQFLYSTFGYTLLAAIVERASGYKY | |
| Retrocopy | KGRNSKPCKKKNDFEQGELYLKEKFENSIESLRLFKNDPLFFKPGSQFLYSTFGYTLLAAIVERASGYKY |
| Parental | LDYMQKIFHDLDMLTTVQEENEPVIYNRARFYVYNKKKRLVNTPYVDNSYKWAGGGFLSTVGDLLKFGNA |
| LDYMQKIFHDLDMLTTVQEENEPVIYNRARFYVYNKKKRLVNTPYVDNSYKWAGGGFLSTVGDLLKFGNA | |
| Retrocopy | LDYMQKIFHDLDMLTTVQEENEPVIYNRARFYVYNKKKRLVNTPYVDNSYKWAGGGFLSTVGDLLKFGNA |
| Parental | MLYGYQVGLFKNANENLLPGYLKPETMLMIWTPVPNTEMSWDKEGKYAMAWGVVEKKQTYGSCRKQRHYA |
| MLYGYQVGLFKNANENLLPGYLKPETMLMIWTPVPNTEMSWDKEGKYAMAWGVVEKKQTYGSCRKQRHYA | |
| Retrocopy | MLYGYQVGLFKNANENLLPGYLKPETMLMIWTPVPNTEMSWDKEGKYAMAWGVVEKKQTYGSCRKQRHYA |
| Parental | SHTGGAVGASSVLLVLPEELDAEALNNKVPPRGIVVSIICNMQSVGLNSTALKIALEFDKDRSDIP |
| S.TGGAVGASSVLLVLPEELDAEALNNKVPPRGIVVSIICNMQSVGLNST.LKIALEFDKDRSD.P | |
| Retrocopy | SYTGGAVGASSVLLVLPEELDAEALNNKVPPRGIVVSIICNMQSVGLNSTVLKIALEFDKDRSDVP |
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 .14 RPM | 14 .27 RPM |
| ERP005899_muscle | 0 .16 RPM | 20 .53 RPM |
| SRP017611_brain | 0 .00 RPM | 3 .06 RPM |
| SRP017611_kidney | 0 .18 RPM | 14 .46 RPM |
| SRP017611_liver | 0 .23 RPM | 12 .23 RPM |
| SRP030211_testis | 0 .17 RPM | 27 .28 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1569 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1569 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1569 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000017373 | 1 retrocopy |
retro_btau_1569 ,
|
| Monodelphis domestica | ENSMODG00000011098 | 1 retrocopy |