RetrogeneDB ID: retro_amel_878

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192705.1:304277..304496(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PET100
• Ensembl ID: ENSAMEG00000008524
• Aliases: None
• Description: PET100 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:40038]

Sequence

>retro_amel_878
GTGCAGTCGGAAATGTTTCAGATAATGCTATACCTCATCGTCTCTGTGACTATGTTCTGGATTGCTTATCAGAAGCAGTG
GTTTGAGGACTACATTATACAAAACAAGGAGGAACTGTGAACACTTGAGAAGGAAGACCAGCACCAAGACCTAAAAGAAT
TCAGAGAGGATCCAGAAACAGCAAGAGCAGAGAAGCTCCTTCAAGTTGCCAGGCGAAGT

Alignment

ORF - retro_amel_878 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.42 %
• Parental protein coverage: 95.95 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VKLEVFRMTLYLTFPVAMFWIANQAEWFEDYVIQRKRELWPPEKED--QELEEFKERIRKQREEKLLRAA
          V..E.F...LYL...V.MFWIA.Q..WFEDY.IQ.K.EL...EKED..Q.L.EF.E.....R.EKLL..A
Retrocopy VQSEMFQIMLYLIVSVTMFWIAYQKQWFEDYIIQNKEEL*TLEKEDQHQDLKEFREDPETARAEKLLQVA

Parental  QQS
          ..S
Retrocopy RRS

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_878 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_878 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008524	2 retrocopies	retro_amel_591, retro_amel_878 ,
Equus caballus	ENSECAG00000008451	1 retrocopy	retro_ecab_606,
Felis catus	ENSFCAG00000023931	2 retrocopies	retro_fcat_1266, retro_fcat_1752,
Gorilla gorilla	ENSGGOG00000027594	1 retrocopy	retro_ggor_1905,
Pan troglodytes	ENSPTRG00000039245	1 retrocopy	retro_ptro_120,