RetrogeneDB ID: retro_amel_785

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192636.1:52902..53301(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000009910
• Aliases: None
• Description: None

Sequence

>retro_amel_785
AATGTGCCCCACAAGACCTCGCTGCCCAAGGGCATCCCAGTCAGCACTGCGATGAGAGTTTGTGGTGTTGTCCGGAACAA
GGCTGGCAGGTTCCATGTGAACCTGCCATGGGGCAAGGGGCAGGAGGCTGAGGCTGCCCTGCATTTCAGTCCCCACCTGG
ACCAATCTATGGTGGCATTCAACACCCTGGAGCAGGGCACCTGGGGCCGAGAGGAGCGTGGCTCAGGCATTTCCTTCCAG
CATGAGCAGCCCTTCAAAGTGTTCCTTGTTGCCACTGAAGAAGGGTTCAAGGCGGTGGTCGGCGACTCCAAGTATCACCA
CTTCTACTACCAATTCCTGCCTGGGTGTGTGTGCCTTTTGGAGGTGGGCAGGGACCTGCAGCTAGAGGCCCCAGAGATC

Alignment

ORF - retro_amel_785 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.92 %
• Parental protein coverage: 72.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NVPHKTSLPEGIRVGTVMRIRGVVPDKAGRFYVNLLCSEVPGSEVALHFNPRLDQSTVVFNTLEQGTWGR
          NVPHKTSLP.GI.V.T.MR..GVV..KAGRF.VNL........E.ALHF.P.LDQS.V.FNTLEQGTWGR
Retrocopy NVPHKTSLPKGIPVSTAMRVCGVVRNKAGRFHVNLPWGKGQEAEAALHFSPHLDQSMVAFNTLEQGTWGR

Parental  EERGSGIPFQHRQPFEVFLIATEDGFKAVVGDSEYHHFRYRIPPARVRLLEVGGDLQLDSVKI
          EERGSGI.FQH.QPF.VFL.ATE.GFKAVVGDS.YHHF.Y...P..V.LLEVG.DLQL....I
Retrocopy EERGSGISFQHEQPFKVFLVATEEGFKAVVGDSKYHHFYYQFLPGCVCLLEVGRDLQLEAPEI

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_785 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_785 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001067	1 retrocopy	retro_amel_429,
Ailuropoda melanoleuca	ENSAMEG00000009910	1 retrocopy	retro_amel_785 ,
Canis familiaris	ENSCAFG00000024191	1 retrocopy	retro_cfam_597,
Felis catus	ENSFCAG00000024418	1 retrocopy	retro_fcat_838,