RetrogeneDB ID: | retro_ptro_2088 | ||
Retrocopylocation | Organism: | Chimpanzee (Pan troglodytes) | |
| Coordinates: | 4:126934840..126935436(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | TECR | ||
| Ensembl ID: | ENSPTRG00000010595 | ||
| Aliases: | None | ||
| Description: | trans-2,3-enoyl-CoA reductase [Source:HGNC Symbol;Acc:4551] |
Retrocopy-Parental alignment summary:
>retro_ptro_2088
GTGGAGATTCTGCACGCAAAGACAGGGGAGAAGCTGTATTTCCTGGACAAGGTGGAGCCCCACACCACCACTGCAGAGAT
CAAGAACCTCTTCACCAAGACCCCTCTGCAGTGGTACCCCGCCCACCAGTCCCTCGGCCTGGACCCCAAGGGCAAGTCCC
TGAATGATGAAGATGTTCTGCAGAAGCTGCCCGTGGGCGCCACGGCCACACTCTACTTCCAGGACGTGGGGGCCCAGATC
AGCTGGGTGACGGTCTTCCTAACAGAGTACGGGGGGCCTCTTTTCATCTACCTGCTCTTCTACTTCTGAGAGCCCTTCAT
CTATGGCAACAAATATGACTTCACATCCAGTCGGCACATGGTGGTGCACCTCACCTGCATCTGTCACTCGTTGCACTACG
TCAAGCACCTGCTGGAGACGTTGTTCATGCACCACTTCTCCCATGGTACCATGCCTTGCGCAACATCTTCAAGAACTGCA
CCTACTCCCGGGGCTTCACTGGGTGGATGGCCTATTACATCAACCACCCTCTCTACACACCCCCTACTTACAGAGCTCAG
CAGGTGAAACTGGCACTTGCCATCTTTGTGATTTGC
GTGGAGATTCTGCACGCAAAGACAGGGGAGAAGCTGTATTTCCTGGACAAGGTGGAGCCCCACACCACCACTGCAGAGAT
CAAGAACCTCTTCACCAAGACCCCTCTGCAGTGGTACCCCGCCCACCAGTCCCTCGGCCTGGACCCCAAGGGCAAGTCCC
TGAATGATGAAGATGTTCTGCAGAAGCTGCCCGTGGGCGCCACGGCCACACTCTACTTCCAGGACGTGGGGGCCCAGATC
AGCTGGGTGACGGTCTTCCTAACAGAGTACGGGGGGCCTCTTTTCATCTACCTGCTCTTCTACTTCTGAGAGCCCTTCAT
CTATGGCAACAAATATGACTTCACATCCAGTCGGCACATGGTGGTGCACCTCACCTGCATCTGTCACTCGTTGCACTACG
TCAAGCACCTGCTGGAGACGTTGTTCATGCACCACTTCTCCCATGGTACCATGCCTTGCGCAACATCTTCAAGAACTGCA
CCTACTCCCGGGGCTTCACTGGGTGGATGGCCTATTACATCAACCACCCTCTCTACACACCCCCTACTTACAGAGCTCAG
CAGGTGAAACTGGCACTTGCCATCTTTGTGATTTGC
ORF - retro_ptro_2088 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85. % |
| Parental protein coverage: | 65.68 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | VEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTAT |
| VEIL.AKT.EKL.FLDKVEPH.T.AEIKNLFTKT..QWYPA.QSL.LDPKGKSL.DEDVLQKLPVG.TAT | |
| Retrocopy | VEILHAKTGEKLYFLDKVEPHTTTAEIKNLFTKTPLQWYPAHQSLGLDPKGKSLNDEDVLQKLPVGATAT |
| Parental | LYFRDLGAQISWVTVFLTEYAGPLFIYLLFYFRVPFIYGHKYDFTSSRHTVVHLACICHSFHYIKRLLET |
| LYF.D.GAQISWVTVFLTEY.GPLFIYLLFYF..PFIYG.KYDFTSSRH.VVHL.CICHS.HY.K.LLET | |
| Retrocopy | LYFQDVGAQISWVTVFLTEYGGPLFIYLLFYF*EPFIYGNKYDFTSSRHMVVHLTCICHSLHYVKHLLET |
| Parental | LFVHRFSHGTMP-LRNIFKNCTYYWGFAAWMAYYINHPLYTPPTYGAQQVKLALAIFVIC |
| LF.H.FSHGTMP.LRNIFKNCTY..GF..WMAYYINHPLYTPPTY.AQQVKLALAIFVIC | |
| Retrocopy | LFMHHFSHGTMP<LRNIFKNCTYSRGFTGWMAYYINHPLYTPPTYRAQQVKLALAIFVIC |
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 |
|---|---|---|
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 94 .47 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 133 .18 RPM |
| SRP007412_heart | 0 .00 RPM | 20 .90 RPM |
| SRP007412_kidney | 0 .00 RPM | 106 .10 RPM |
| SRP007412_liver | 0 .00 RPM | 86 .68 RPM |
| SRP007412_testis | 0 .00 RPM | 123 .93 RPM |
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2088 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2088 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ptro_2088 has 1 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_3092 |
Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Pan troglodytes | ENSPTRG00000010595 | 1 retrocopy |
retro_ptro_2088 ,
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