RetrogeneDB ID: retro_lafr_503

Retrocopy location

• Organism: Elephant (Loxodonta africana)
• Coordinates: scaffold_2:33002686..33002905(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP6V0E2
• Ensembl ID: ENSLAFG00000006800
• Aliases: None
• Description: None

Sequence

>retro_lafr_503
GTGCCTCTCATTGTGATGAGCGTGTTCTGGGGCTTCGTGGGCTTCTTAGTGCCCTGGTTCATCCCTAAGGGCCCTAACCG
AGGAGTTATCATCACTATGTTGGTGACCTGTTCAGTTTGCTGCTACCTGTTTTGGCTGATTGCGATTCTGGCCCAGCTCA
ACCCTCTCTTTGGACCACAGTTGAAAAATGAATCCATCTGGTAACTCAAGTATCACTGG

Alignment

ORF - retro_lafr_503 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.6 %
• Parental protein coverage: 90.12 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LPVIVFTTFWGLIGIAGPWFVPKGPNRGVIITVLVTTAVCCYLFWLIAILAQLNPLFGPQLKNETIWYVR
          .P.IV...FWG..G...PWF.PKGPNRGVIIT.LVT..VCCYLFWLIAILAQLNPLFGPQLKNE.IW...
Retrocopy VPLIVMSVFWGFVGFLVPWFIPKGPNRGVIITMLVTCSVCCYLFWLIAILAQLNPLFGPQLKNESIW*LK

Parental  FLW
          ..W
Retrocopy YHW

Legend:

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

Expression

RNA-Seq

Loxodonta africana was not studied using RNA-Seq expression data.

ChIP-Seq

Loxodonta africana was not studied using ChIP-Seq data.

EST

Loxodonta africana was not studied using EST data.

TSS

Loxodonta africana was not studied using FANTOM5 data.

Lab

retro_lafr_503 was not experimentally validated.

Homology

Retrocopy orthology:

Loxodonta africana 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000006800	3 retrocopies	retro_lafr_314, retro_lafr_503 , retro_lafr_638,
Mustela putorius furo	ENSMPUG00000007307	2 retrocopies	retro_mputfur_1226, retro_mputfur_1441,