RetrogeneDB ID: | retro_ggor_2771 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 9:5127773..5128444(+) | ||
| Located in intron of: | ENSGGOG00000007243 | ||
Retrocopy information | Ensembl ID: | ENSGGOG00000013130 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | IGHE | ||
| Ensembl ID: | ENSGGOG00000028496 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_2771
CAAACGCTCACCTGCAGCGTGGCACACACTCTGTGGTCCGCAGACCAGGTCAGTACCTTCAGCGTCTACTCCAGGGACTT
CACCCTCCCCACCGTGAAGATCTTACAGTCCTCCTGTGATGGCAGCGGACACTTACCCCCGACCATCCAGTTCCTGTGCC
TCATCTCCGGGTACACCCAGGTGCCATCAGCATCACCTGGCTGGAGGATGGGCAGGTCGTGGATGTGAACTGGTCCATCG
CCTCTCCCATGCTGGAGGATGAGCTGGCCTCCACACAAAGCAAGCTCACCCTCACCCAGAAGCGCTGGCTGCCCGACCAC
ACCTACATCTGCCAGGTCACCTATCAAGGTAACACCTTTGAGGACAGTGCCAAGAAGCGTGCAGATTCTAACCCGCAGGG
GGTGAGCACCTACCTGAGCCGGTCCAGCCCCTTCTACCTGTTCATCCGCAAGTTGCCCACAATCACCTGTCTGGTGGTGG
ACCTGGCACCCAGCAGGGAGAACGTGAAGCTGACTTGGTCCCAGGCCAGTGGGAAGTCTGTGGCTCAGGTCATCCTAAGG
CAAGAGAAGCAGTGCAATGGCATGTTCACCATCACGTCCACCCTGCTGGTGGGCACCAGAGACTGGATCAAGGGGGAGAC
CTACCAGTGCAGGGTGACCCACACCCACCTG
ORF - retro_ggor_2771 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.01 % |
| Parental protein coverage: | 51.6 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | QMFTCHVAHTPSSADWVDNKTFGVCSRDFTPPTVKILQSSCDGGGHLPPTIQLLCLVSGYT-PGTINITW |
| Q..TC.VAHT..SAD.V...TF.V.SRDFT.PTVKILQSSCDG.GHLPPTIQ.LCL.SGYT.PG.I.ITW | |
| Retrocopy | QTLTCSVAHTLWSADQVS--TFSVYSRDFTLPTVKILQSSCDGSGHLPPTIQFLCLISGYT<PGAISITW |
| Parental | LEDGQVMDVDLSTASTTQEGELASTQSELTLSQKHWLSDRTYTCQVTYQGDTFEDSTKKCADSNPRGVSA |
| LEDGQV.DV..S.AS...E.ELASTQS.LTL.QK.WL.D.TY.CQVTYQG.TFEDS.KK.ADSNP.GVS. | |
| Retrocopy | LEDGQVVDVNWSIASPMLEDELASTQSKLTLTQKRWLPDHTYICQVTYQGNTFEDSAKKRADSNPQGVST |
| Parental | YLSRPSPFDLFIRKSPTITCLVVDLAPSKGTVNLTWSRASGKPVNHSTRKQEKQRNGTLTVTSTLPVGTR |
| YLSR.SPF.LFIRK.PTITCLVVDLAPS...V.LTWS.ASGK.V......QEKQ.NG..T.TSTL.VGTR | |
| Retrocopy | YLSRSSPFYLFIRKLPTITCLVVDLAPSRENVKLTWSQASGKSVAQVILRQEKQCNGMFTITSTLLVGTR |
| Parental | DWIEGETYQCRVTHPHL |
| DWI.GETYQCRVTH.HL | |
| Retrocopy | DWIKGETYQCRVTHTHL |
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 .19 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .04 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .16 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .08 RPM | 0 .08 RPM |
| SRP007412_testis | 0 .21 RPM | 0 .00 RPM |
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_2771 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_2771 has 1 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Macaca mulatta | retro_mmul_1193 |
Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gorilla gorilla | ENSGGOG00000028496 | 1 retrocopy |
retro_ggor_2771 ,
|
| Macaca mulatta | ENSMMUG00000030305 | 1 retrocopy |