RetrogeneDB ID: | retro_amel_1563 | ||
Retrocopy location | Organism: | Panda (Ailuropoda melanoleuca) | |
| Coordinates: | GL193625.1:5119..5405(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PDE6D | ||
| Ensembl ID: | ENSAMEG00000016282 | ||
| Aliases: | None | ||
| Description: | phosphodiesterase 6D, cGMP-specific, rod, delta [Source:HGNC Symbol;Acc:8788] |
Retrocopy-Parental alignment summary:
>retro_amel_1563
AATTGGATGAGCCTCCGGGATGCTGAGACAGGGAAGATACTGTGGCAAGGAACAGAAGACCTGTCAGTCCCTGGAGTGGG
GCATGAAGCCCATATTCCCAAGAATACCCTCAAGTGTAGGGCAGTGTCTCCAAAATTGAAATTGTCTTCAGCAGAGAAAA
TAGGAAAAATTCCACCTGGAACAAAAAGTTTACTTTTAAGGGCAATGCCTAGAAAAATGGATCTTAGAGTTTGGCTTTGT
GATCCCTAATGCCACAAACACCTGGCAGTCCCAGGTGATGCCCGCT
ORF - retro_amel_1563 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.0 % |
| Parental protein coverage: | 62.91 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | NWMNLRDAETGKILWQGTEDLSVPGVEHEARVPKKILKCKAVSRELNFSSAEQM-EKFRLEQKVYFKGQC |
| NWM.LRDAETGKILWQGTEDLSVPGV.HEA..PK..LKC.AVS..L..SSAE...EKF.LEQKVYF.GQC | |
| Retrocopy | NWMSLRDAETGKILWQGTEDLSVPGVGHEAHIPKNTLKCRAVSPKLKLSSAEKI>EKFHLEQKVYF*GQC |
| Parental | LEEWFFEFGFVIPNSTNTWQSLIEAA |
| LE.W..EFGFVIPN.TNTWQS....A | |
| Retrocopy | LEKWILEFGFVIPNATNTWQSQVMPA |
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_1563 retrocopy.
Ailuropoda melanoleuca was not studied using FANTOM5 data.
retro_amel_1563 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 | ENSAMEG00000016282 | 1 retrocopy |
retro_amel_1563 ,
|
| Oryctolagus cuniculus | ENSOCUG00000010403 | 1 retrocopy |