RetrogeneDB ID: | retro_amel_273 | ||
Retrocopy location | Organism: | Panda (Ailuropoda melanoleuca) | |
| Coordinates: | GL192372.1:2448430..2448713(-) | ||
| Located in intron of: | ENSAMEG00000016636 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FAM104A | ||
| Ensembl ID: | ENSAMEG00000002692 | ||
| Aliases: | None | ||
| Description: | family with sequence similarity 104, member A [Source:HGNC Symbol;Acc:25918] |
Retrocopy-Parental alignment summary:
>retro_amel_273
AAACACAACACCTTCTGCTCCCTCTTGCCTTCTCGAGGAGCAGCGCCACGTCGTCCGCCTCCACCGGCTACCACGAGCAA
GCGCCGTGCCCAGAGAAAGCAGAAGGAATGACGAGGAAGAAACCACATCTTACCTGCTCAGACCAGGATGAGGAATAGAA
ACCCTGTCCTTCACGATTCCCCGGGACACAGGGTCTTCAAGCAGTGAGTGTGGTAGGAACAGCAGTCCTCCAGACAGGGC
CCATGGGCCAGAAAGCAGTTTAAACCACATGGCCGCCAGGTCC
ORF - retro_amel_273 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.0 % |
| Parental protein coverage: | 58.93 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | RRNTTPSVPSSGGAAPRRSPPPAAMSERLRPRKRRRNGNEEDHHLPPQTKRSSRNPVFHDS-WDTESSSS |
| ..NT..S...S.GAAPRR.PPPA..S.R.R............H.LP.QT....RNPV.HDS..DT.SSSS | |
| Retrocopy | KHNTFCSLLPSRGAAPRRPPPPATTSKR-RAQRKQKE*RGRNHILPAQTRMRNRNPVLHDS>RDTGSSSS |
| Parental | DSGGSSSSSINSPDRASGPESGLNHMAAGS |
| ..G..SS.....PDRA.GPES.LNHMAA.S | |
| Retrocopy | ECGRNSS----PPDRAHGPESSLNHMAARS |
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_273 retrocopy.
Ailuropoda melanoleuca was not studied using FANTOM5 data.
retro_amel_273 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000002692 | 1 retrocopy |
retro_amel_273 ,
|
| Mus musculus | ENSMUSG00000041629 | 1 retrocopy | |
| Oryctolagus cuniculus | ENSOCUG00000003744 | 1 retrocopy |