RetrogeneDB ID: retro_amel_1386

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL193298.1:156006..156359(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000006512
• Aliases: None
• Description: None

Sequence

>retro_amel_1386
GCCCTGAATGTAGCTGAGAAGAAGCTGTTCAAGCCCTGGTGAGTGTTGAACTGGGAGAGGCAACTGAAGCACCGGTGCTT
CTGACTGACAGAGGATGGGCTGAACATGCAGCACCACCTCGAGAAGTGAGCGTCAGTTGCATGTGCCAACATTACTCTGG
GAAGAAGTGCAGAAAACTCCTTCCGCAGATCCCGCTTGCCCAGAAAGAGAAAGCAGTCATCGAAGTGGAAACCCCTACAA
AGCCATCCAGGACTAGTGAGCCACAGCCCAAAGGGTCAAAGAAGACAAAAGCACTCCAGGATGTAGACATGGAAGACCGT
GAAGAAGAGAGCTAAATCTCTCACCCCATCTAC

Alignment

ORF - retro_amel_1386 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.98 %
• Parental protein coverage: 71.69 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ALRELKKKLFKRRRVLNRQRRLKHRVIGAVIDEGLITRHHLKKRASSARANITLSGK-KRRKLLQQIRLA
          AL....KKLFK...VLN..R.LKHR........GL...HHL.K.AS.A.ANITL.G..K.RKLL.QI.LA
Retrocopy ALNVAEKKLFKPW*VLNWERQLKHRCF*-LTEDGLNMQHHLEK*ASVACANITL-GR<KCRKLLPQIPLA

Parental  QKEKAAMEVEAPTRSARTSEPQPKRQKKTKAPQDVDMEDLEDKS-ISHPFH
          QKEKA..EVE.PT...RTSEPQPK..KKTKA.QDVDMED.E..S.ISHP..
Retrocopy QKEKAVIEVETPTKPSRTSEPQPKGSKKTKALQDVDMEDREEES*ISHPIY

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_1386 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1386 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 9 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006512	1 retrocopy	retro_amel_1386 ,
Bos taurus	ENSBTAG00000010465	2 retrocopies	retro_btau_1195, retro_btau_1799,
Canis familiaris	ENSCAFG00000015719	2 retrocopies	retro_cfam_1104, retro_cfam_757,
Felis catus	ENSFCAG00000025454	2 retrocopies	retro_fcat_1722, retro_fcat_773,
Macaca mulatta	ENSMMUG00000013949	4 retrocopies	retro_mmul_1186, retro_mmul_1541, retro_mmul_1785, retro_mmul_1981,
Mus musculus	ENSMUSG00000071653	2 retrocopies	retro_mmus_1809, retro_mmus_759,
Otolemur garnettii	ENSOGAG00000033103	1 retrocopy	retro_ogar_811,
Rattus norvegicus	ENSRNOG00000019701	4 retrocopies	retro_rnor_1066, retro_rnor_1955, retro_rnor_851, retro_rnor_883,
Sus scrofa	ENSSSCG00000023323	2 retrocopies	retro_sscr_1162, retro_sscr_1163,