RetrogeneDB ID: | retro_btau_636 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 16:6155905..6156793(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000047966 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GRHPR | ||
| Ensembl ID: | ENSBTAG00000019299 | ||
| Aliases: | None | ||
| Description: | glyoxylate reductase/hydroxypyruvate reductase [Source:RefSeq peptide;Acc:NP_001178966] |
Retrocopy-Parental alignment summary:
>retro_btau_636
CAGTGGGATTCTGATGAGCCCATCCCCAGAGAGGACCTGGAACAGAGAATGGCTGGGGCCCAGGGCCTGCTCTGCCTCCT
CTCGGACCGCATAGACAAGAAGCTCCTGGACGCTGCAGGAGCTAATCTCAAAGTCATTAGCACAATGTCTGTAGGTGTCG
ACCACTTGGCTTTGGATGAAATCAAGAAGCGTGGGATCCGTGTGGGCTACACTCCGGGTGTCCTGACAGACGCCACCGCC
GAGCTCGCCGTCTCCCTGCTGCTTACCATTTGTCGCCGGTTGCCGGAGGCCATCGAGGAGGTGAAGAACGGTGGTTGGAC
CTCATGGAAACCCCTGTGGATGTGTGGCCACGGCCTTTCACAGAGCACCGTCGGCATCGTTGGCCTGGGGCGCATAGGCC
AGGCCATTGCTCGGCGTCTGAAACCATTCGGTGTCCGGAGATTTCTATACACAGGGCGCCAGCCCAGGTCTCAGGAAGCA
GCGGAATTCCAGGCAGAGTTTGTGTCCACCCCCGAGCTGGCCGCCGAGTCCGATTTCATCGTTGTGGCCTGCTCCTTAAC
ACCGGCGACCAGGGGGCTCTGCAACAAGGACTTCTTCCAGTGGATGAAGAAAACAGCTGTGTTTGTCAACATCAGCAGGG
GAGAAGTGGTAGACCAGGATGACCTGTACCAGGCCCTGGCCAGCGGTCAGATTGCAGCTGCTGGACTGGACGTGACGACC
CCAGAACCACTGCCTACCAACCACCCTCTCCTGACCCTGAAGAACTGTGTGATCTTGCCTCACATTGGCAGTGCCACCCA
CAGGACCCGAAACATCATGTCTGTCTTGGCAGCTGACAACCTGCTGGCTGGCCTGCGAGGGGAGCCGATGCCCAGTGAAC
TCAAGCTG
ORF - retro_btau_636 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.99 % |
| Parental protein coverage: | 90.24 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | QWDSDEPIPREDLEQRMAGAQGLLCLLSDRIDKKLLDAAGANLKVISTMSVGVDHLALDEIKKRGIRVGY |
| QWDSDEPIPREDLEQRMAGAQGLLCLLSDRIDKKLLDAAGANLKVISTMSVGVDHLALDEIKKRGIRVGY | |
| Retrocopy | QWDSDEPIPREDLEQRMAGAQGLLCLLSDRIDKKLLDAAGANLKVISTMSVGVDHLALDEIKKRGIRVGY |
| Parental | TPGVLTDATAELAVSLLLTTCRRLPEAIEEVKNGGWTSWKPLWMCGHGLSQSTVGIVGLGRIGQAIARRL |
| TPGVLTDATAELAVSLLLT.CRRLPEAIEEVKNGGWTSWKPLWMCGHGLSQSTVGIVGLGRIGQAIARRL | |
| Retrocopy | TPGVLTDATAELAVSLLLTICRRLPEAIEEVKNGGWTSWKPLWMCGHGLSQSTVGIVGLGRIGQAIARRL |
| Parental | KPFGVRRFLYTGRQPRPQEAAEFQAEFVSTPKLAAESDFIVVACSLTPATRGLCNKDFFQWMKKTAVFVN |
| KPFGVRRFLYTGRQPR.QEAAEFQAEFVSTP.LAAESDFIVVACSLTPATRGLCNKDFFQWMKKTAVFVN | |
| Retrocopy | KPFGVRRFLYTGRQPRSQEAAEFQAEFVSTPELAAESDFIVVACSLTPATRGLCNKDFFQWMKKTAVFVN |
| Parental | ISRGEVVDQDDLYQALASGQIAAAGLDVTTPEPLPTNHPLLTLKNCVILPHIGSATHRTRNIMSVLAADN |
| ISRGEVVDQDDLYQALASGQIAAAGLDVTTPEPLPTNHPLLTLKNCVILPHIGSATHRTRNIMSVLAADN | |
| Retrocopy | ISRGEVVDQDDLYQALASGQIAAAGLDVTTPEPLPTNHPLLTLKNCVILPHIGSATHRTRNIMSVLAADN |
| Parental | LLAGLRGEPMPSELKL |
| LLAGLRGEPMPSELKL | |
| Retrocopy | LLAGLRGEPMPSELKL |
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 | 1 .37 RPM | 20 .40 RPM |
| ERP005899_muscle | 0 .53 RPM | 13 .67 RPM |
| SRP017611_brain | 1 .05 RPM | 11 .10 RPM |
| SRP017611_kidney | 6 .40 RPM | 47 .77 RPM |
| SRP017611_liver | 3 .85 RPM | 61 .99 RPM |
| SRP030211_testis | 0 .08 RPM | 4 .75 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_636 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_636 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_636 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 | ENSBTAG00000019299 | 1 retrocopy |
retro_btau_636 ,
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