RetrogeneDB ID: | retro_amel_1109 | ||
Retrocopy location | Organism: | Panda (Ailuropoda melanoleuca) | |
| Coordinates: | GL192912.1:732865..733673(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSAMEG00000015903 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FBXO17 | ||
| Ensembl ID: | ENSAMEG00000008717 | ||
| Aliases: | None | ||
| Description: | F-box protein 17 [Source:HGNC Symbol;Acc:18754] |
Retrocopy-Parental alignment summary:
>retro_amel_1109
GCCCGGGTCCCCGCGCGGGAGCCTGAACCCGAGGAGGCGCTGGACCTGAGCCAGCTGCCCCCGGAGCTGCTCCTGTTGGT
GCTGAGCCACGTGCCCCCGCGCACGCTGCTGGCGTGCTGCCGCCGGGTGTGGTGTGGCTGGCGCGCCCTGGTGGACAGCC
AGGCCCTGTGGCTGCGCGTCTTGGCCCGGGAGCAGGTCTCCGTGCTGCCGCTCATCCGCAGCTGCCTGCCCACCGCCCGG
GACGACAGGCCCTTTCTCCTGAGCCGCCTCTGCGAGCTCCGACCGGTCAGACGCAACCTCATCCGCAACCCCTGCAGCCA
GGAAGGCCTCCAGAATTGGACGGTGCAGCACGGCGGGGACGGCTGGGTGGTGGAGGTAAACCTGTCACCGGTGCCTGGGG
CTCCCTCGCAGACCTGCTTCGTGTCTTCCTTCAGGTGGTGTAACAAAAAGCAGGTCCTGGACCTGGAGGAAGAGGGTTTG
TGGCCAGAGCTGCTAGATAGTGGCAGGATTGAAATTTGTGTGTCTTGACTGGTGGGGAGCTCGAGACGACTGTGGCTGTG
AGTATGGACTCCGTGTCCAGCTTCTAGATGCCAGGCAGAACGTCCTGGATGAATTCTCTGTTTCGCCGGATCCCATCCAG
GAGTGGAACAACCACGTCTGCTTTCAGGTCACCCACGTGTTCTCTAACTTCAGGATGGCCATGCGCTTTGTGTCTTTTGA
ACACTGGGGCCAGGACACGCAGTCCTGGGCTGGTCGCTATGGAGCTCGTGTCACCAACTCCAGTGTGGTCCTGCGGGCCC
AGCTGTCT
ORF - retro_amel_1109 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.17 % |
| Parental protein coverage: | 99.28 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | ARPSRRRLPADPPLALDALPPELLVQVLSHVPPRALVTRCRAVCRAWRDVVDGPTVWLLQLARDRSAEGR |
| AR...R.......L.L..LPPELL..VLSHVPPR.L...CR.V...WR..VD....WL..LAR....E.. | |
| Retrocopy | ARVPAREPEPEEALDLSQLPPELLLLVLSHVPPRTLLACCRRVWCGWRALVDSQALWLRVLAR----EQV |
| Parental | ALYAVAQRCPPNSEDEEFPLCALARYCLRAPLGRNLIFNSCGEQGFRGWEVEHGGNGWAVEKNLTLVPGA |
| ........C.P...D....L..L.R.C...P..RNLI.N.C...G...W.V.HGG.GW.VE.NL..VPGA | |
| Retrocopy | SVLPLIRSCLPTARDDRPFL--LSRLCELRPVRRNLIRNPCSQEGLQNWTVQHGGDGWVVEVNLSPVPGA |
| Parental | PSQTCFVTSFQWCFKRQLVDLVMEGVWQELLDSAQIEICVA-DWWGARENCGCIYRLRVRLLDMYENEVV |
| PSQTCFV.SF.WC.K.Q..DL..EG.W.ELLDS..IEICV..DWWGAR..CGC.Y.LRV.LLD...N... | |
| Retrocopy | PSQTCFVSSFRWCNKKQVLDLEEEGLWPELLDSGRIEICVS>DWWGARDDCGCEYGLRVQLLDARQNVLD |
| Parental | KFSASPNPVLQWTERGCRQVSHVFTNFGKGIRYVSFEQYGRDTRSWVGHYGALVTHSSVRVRIRLS |
| .FS.SP.P...W....C.QV.HVF.NF....R.VSFE..G.DT.SW.G.YGA.VT.SSV..R..LS | |
| Retrocopy | EFSVSPDPIQEWNNHVCFQVTHVFSNFRMAMRFVSFEHWGQDTQSWAGRYGARVTNSSVVLRAQLS |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Ailuropoda melanoleuca was not studied using RNA-Seq expression data.
Ailuropoda melanoleuca was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_amel_1109 retrocopy.
Ailuropoda melanoleuca was not studied using FANTOM5 data.
retro_amel_1109 was not experimentally validated.
Retrocopy orthology:
Ailuropoda melanoleuca does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000008717 | 1 retrocopy |
retro_amel_1109 ,
|
| Cavia porcellus | ENSCPOG00000000656 | 1 retrocopy |