RetrogeneDB ID: retro_lafr_910

Retrocopy location

• Organism: Elephant (Loxodonta africana)
• Coordinates: scaffold_48:15513284..15513673(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBP7
• Ensembl ID: ENSLAFG00000028419
• Aliases: None
• Description: None

Sequence

>retro_lafr_910
TCTGACCTCAGCAGCACCTGTAACCTACTGAGCAGGGACAATTTCAAGGGCTACATGCTGGCCTTTGGTATTGATTTTGC
TACTCATAAGTTAGCCAAGTTGCTGAAGCCACAGAAAGTGATTGAGCAAATGGGGATTCTTTCATGACCCACACAGAGAG
CAGTCTAAGAAACTACCTTATTAAATTTAAGAATTGAGAAGAATTTCTAGAAGATAACAAAGGCCTGGGTAACAGAAAAT
GCAACAGTTTGGCAACCTGGGACAATGGCAGACTCACCTGCATCTAGAAGGGAAAAAAGAAGAACGGAGGCTGTACCCAC
TGGGTCCAAGGGGATGACCTCCACCGGGAAATGTCCTGTGAAGGCCAAGTGTGCAAACAGAGGTTCCAG

Alignment

ORF - retro_lafr_910 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.23 %
• Parental protein coverage: 97.74 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ADFRGTWNLLSNDNFEGYMLALGIDFATYKIAQLLKSQKVTEQ-NGDSFIIHTHSSLKNHLVKFKVGEEF
          .D...T.NLLS.DNF.GYMLA.GIDFAT.K.A.LLK.QKV.EQ.NGDSF..HT.SSL.N.L.KFK..EEF
Retrocopy SDLSSTCNLLSRDNFKGYMLAFGIDFATHKLAKLLKPQKVIEQ<NGDSFMTHTESSLRNYLIKFKN*EEF

Parental  DEDNKGLGNRKCKSLVTWNNDRLTCVQKGEKKNRGWTHWLEGDKLHLEMFCEGQLCKQAFQ
          .EDNKGLGNRKC.SL.TW.N.RLTC..KG.KKN.G.THW..GD.LH.EM.CEGQ.CKQ.FQ
Retrocopy LEDNKGLGNRKCNSLATWDNGRLTCI*KGKKKNGGCTHWVQGDDLHREMSCEGQVCKQRFQ

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_910 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019753	1 retrocopy	retro_cfam_1758,
Loxodonta africana	ENSLAFG00000028419	1 retrocopy	retro_lafr_910 ,