RetrogeneDB ID: retro_lafr_417

Retrocopy location

• Organism: Elephant (Loxodonta africana)
• Coordinates: scaffold_15:41380504..41380768(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP6V1G3
• Ensembl ID: ENSLAFG00000021963
• Aliases: None
• Description: None

Sequence

>retro_lafr_417
ATGACCAGCCAGTTTCAGGGGATCCACCAGCTCCTTCAAGCAGAAAAAAGGGCCAAGGACAAGCTAGATGAAGCAAAAAA
GAGAAAAGGGAATAGATTGAAACAAGCTAAGGAAGAAGCAGTGAAAGAAACTGACCAGTAACGAATGCAGAAAGATAAAG
AGTTTCGGCTGTAACAGTCTAAGATATTGGGCTCTTAGAGTAATCTCGCAGATGAAATAGAAGAGCAAACACTAGGAAAG
ATACAAGAGCTGAATGGGAGCTAC

Alignment

ORF - retro_lafr_417 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.95 %
• Parental protein coverage: 74.58 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTSQSQGIHQLLQAEKRAKDKLDEAKQRKGKRLKQAKEEAMAEIDQYRMQKDKEFQLKQPKIMGCQSNLA
          MTSQ.QGIHQLLQAEKRAKDKLDEAK.RKG.RLKQAKEEA..E.DQ.RMQKDKEF.L.Q.KI.G..SNLA
Retrocopy MTSQFQGIHQLLQAEKRAKDKLDEAKKRKGNRLKQAKEEAVKETDQ*RMQKDKEFRL*QSKILGS*SNLA

Parental  DEIEQQTLGKIQELCGSY
          DEIE.QTLGKIQEL.GSY
Retrocopy DEIEEQTLGKIQELNGSY

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_417 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019890	1 retrocopy	retro_btau_787,
Loxodonta africana	ENSLAFG00000013437	2 retrocopies	retro_lafr_1002, retro_lafr_39,
Loxodonta africana	ENSLAFG00000021963	1 retrocopy	retro_lafr_417 ,
Monodelphis domestica	ENSMODG00000012794	1 retrocopy	retro_mdom_264,