RetrogeneDB ID: | retro_ggor_2464 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 6:116427968..116428297(-) | ||
| Located in intron of: | ENSGGOG00000007465 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NIP7 | ||
| Ensembl ID: | ENSGGOG00000022785 | ||
| Aliases: | None | ||
| Description: | 60S ribosome subunit biogenesis protein NIP7 homolog [Source:UniProtKB/TrEMBL;Acc:G3RX93] |
Retrocopy-Parental alignment summary:
>retro_ggor_2464
ACCTGCTTCAGAAAATTCACCAAGACCTACAAGTTTCAGTTGAACATCACAGCTCTGGATTACCCTGCACCCTATGCCAA
GTATAAAGTGCGGATAAAACCTGGAGCACAGCAGTCCTTTCTATATGGGGATGATATGTTGAAATCTTGTCTGAGTCAAA
TCACGAAAAATACTTCTCCTGGCCAGGAAGTGGTGGTGGCAGACATCCCTTTGAGTTTTGGGGTGGCAGCCACATGTACA
CAAGACTGCAGAAAAGGAGACCCCACCGATTTGTGGTATTTCATCAAGCAAACACTGGTGAATATGTGCGGCATGAAGAG
ACGGTGACT
ORF - retro_ggor_2464 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.93 % |
| Parental protein coverage: | 62.78 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | TCFGKFTKTHKFRLHVTALDYLAPYAKYKVWIKPGAEQSFLYGNHVLKSGLGRITENTSQYQGVVVYSMA |
| TCF.KFTKT.KF.L..TALDY.APYAKYKV.IKPGA.QSFLYG...LKS.L..IT.NTS..Q.VVV...A | |
| Retrocopy | TCFRKFTKTYKFQLNITALDYPAPYAKYKVRIKPGAQQSFLYGDDMLKSCLSQITKNTSPGQEVVV---A |
| Parental | DIPLGFGVAAKSTQDCRKVDPMAI-VVFHQADIGEYVRHEETLT |
| DIPL.FGVAA..TQDCRK.DP....VVFHQA..GEYVRHEET.T | |
| Retrocopy | DIPLSFGVAATCTQDCRKGDPTDL<VVFHQANTGEYVRHEETVT |
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 | 10 .69 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 4 .73 RPM |
| SRP007412_heart | 0 .00 RPM | 1 .94 RPM |
| SRP007412_kidney | 0 .00 RPM | 13 .13 RPM |
| SRP007412_liver | 0 .00 RPM | 7 .52 RPM |
| SRP007412_testis | 0 .10 RPM | 25 .59 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_2464 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_2464 has 5 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_3648 |
| Pan troglodytes | retro_ptro_2473 |
| Pongo abelii | retro_pabe_2995 |
| Macaca mulatta | retro_mmul_1801 |
| Callithrix jacchus | retro_cjac_2466 |