RetrogeneDB ID: retro_lafr_239

Retrocopy location

• Organism: Elephant (Loxodonta africana)
• Coordinates: scaffold_10:17581483..17581807(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: APOD
• Ensembl ID: ENSLAFG00000012014
• Aliases: None
• Description: None

Sequence

>retro_lafr_239
CTGATGTTGCGGCTTTCCACCCTGGCTGGCCTCTTCGTGGGTTTGGCAAAGGGACAGGCAGTCTATTCTGGGAAGTGTCC
GAGTGCTCCCCTGCAGGAGAATTTTGACGTGAACAAGTATCTGGTAAGATGGTACAAAATTGAGACGATCCCGGTGACCT
TTGAGAAGGGAAGCTGCATCCAAGCCAACTACTCGCTAATGGAGAAAGGAAACACCAAAGTGATAAGCCAGGAGGTGAGC
CCTGATGGAACACTGAATCAAACTGAAGGTGAGGCCACCCAGGCCAACCTCACAGAGCTCGCCAAGCTGGGAGTCAAGTT
TTTC

Alignment

ORF - retro_lafr_239 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.56 %
• Parental protein coverage: 56.84 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLLLLSTLAGLFVDVAQGQAFHPGKCPNPPVQENFDVNKYLGRWYEIEKIPVTFEKGSCIQANYSLMENG
          ..L.LSTLAGLFV..A.GQA...GKCP..P.QENFDVNKYL.RWY.IE.IPVTFEKGSCIQANYSLME.G
Retrocopy LMLRLSTLAGLFVGLAKGQAVYSGKCPSAPLQENFDVNKYLVRWYKIETIPVTFEKGSCIQANYSLMEKG

Parental  NIKVINQEVRPDGTLNQIEGEATQANLTEPAKLGVKFF
          N.KVI.QEV.PDGTLNQ.EGEATQANLTE.AKLGVKFF
Retrocopy NTKVISQEVSPDGTLNQTEGEATQANLTELAKLGVKFF

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_239 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000012014	1 retrocopy	retro_lafr_239 ,