RetrogeneDB ID: retro_amel_813

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192659.1:6893..7174(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: C20ORF24
• Ensembl ID: ENSAMEG00000010103
• Aliases: None
• Description: None

Sequence

>retro_amel_813
CCACAGCTGCAGCTGGCCCACGGGGCCCTCAAAGTCTCTGGCTGAAGCACGGTGTTGGCGGAGTGATGCGGCCCAGGAGG
ACAAGGATGAATTTTTAGATGTGATCTACGGGTTTCGACAGATCATCTCTGTGGTCCTAGGTGTCATTTGGGGGAGTGTC
AGCTTTGCAGGGTTTCTTGGGAACAGCAGGATTCTGCCTGATCAATGCAGGGGTCCTGTACCTCTGCTTCAGCAACTACC
TACAGATAAGTGAGGAAGAATACGACGGCACATGGGAGGTG

Alignment

ORF - retro_amel_813 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.05 %
• Parental protein coverage: 73.23 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PQPQLANGALKVSVWSKVL-RSDAAWEDKDEFLDVIYWFRQIIAVVLGVIWG-VLPLRGFLGIAGFCLIN
          PQ.QLA.GALKVS..S.VL.RSDAA.EDKDEFLDVIY.FRQII.VVLGVIWG.V..L.GFLG.AGFCLIN
Retrocopy PQLQLAHGALKVSG*STVL>RSDAAQEDKDEFLDVIYGFRQIISVVLGVIWG>VSALQGFLGTAGFCLIN

Parental  AGVLYLYFSNYLQIDEEEYGGTWEL
          AGVLYL.FSNYLQI.EEEY.GTWE.
Retrocopy AGVLYLCFSNYLQISEEEYDGTWEV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Ailuropoda melanoleuca was not studied using RNA-Seq expression data.

ChIP-Seq

Ailuropoda melanoleuca was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_amel_813 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_813 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010103	1 retrocopy	retro_amel_813 ,
Myotis lucifugus	ENSMLUG00000009696	1 retrocopy	retro_mluc_698,