RetrogeneDB ID: retro_ogar_1521

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873550.1:11957795..11958307(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000024897
• Aliases: None
• Description: None

Sequence

>retro_ogar_1521
ATGGGCAGCGTGGGCTTTTGCACCGAGGTGAAGGAGGGCCTGATCGATGTTGTGACAGGGCTCAGTGGCAGCAGACCTGC
CTATCCGCTCATGGCCCTGGATGCGTTGGCTGACGGTGGAGTGAAGATGCGCTTGCCCGCAGCCTGGCAGTCCGATTGGA
GGCCCAAGCCTTATTGGGTGCTTATTGGGTGCCAAGATGCTGCTGGACTCAAAGCAGCATTCAGGTCAGCTCAAGGACAA
TGTCTGTTCCTGGGAAGGGGGCCACCATCCATGCCCTGCACTTTCTAGAGAGTGGGGGCTTCTGTTCTCTGCTCATCAAT
ACAGTGGAGGCCTCCTGTATCAGAACACCAGAGTTGCAGTCCATGGATGACCAAAAAAAGATCTCCCCAGCTGCCCTTAA
GAAGACCCTCCTGGACAGGTGGAAGCTGGAATCTCCTACAGTTTCCACACTGGCCCCCTGCAGCCCAGGGAAGCTTCTTA
CAAGAACCCCAGCCTGGGGAGGCAAGAAGAAC

Alignment

ORF - retro_ogar_1521 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.03 %
• Parental protein coverage: 52.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MSSVGFCTEVEEDLIDAVTGLSGSGPAYAFMALDALADGGVKMGLP-RRLAVRLGAQ-ALLGA---AKML
          M.SVGFCTEV.E.LID.VTGLSGS.PAY..MALDALADGGVKM.LP.R.LAVRL.AQ..L.G....AKML
Retrocopy MGSVGFCTEVKEGLIDVVTGLSGSRPAYPLMALDALADGGVKMRLP<RSLAVRLEAQ<SLIGCLLGAKML

Parental  LDSEQHPGQLKDNVCS-PGGATIHALHFLESGGFRSLLIKAVEASCIRTRELQSMADQEKISPAALKKTL
          LDS.QH.GQLKDNVCS...GATIHALHFLESGGF.SLLI..VEASCIRT.ELQSM.DQ.KISPAALKKTL
Retrocopy LDSKQHSGQLKDNVCS>GKGATIHALHFLESGGFCSLLINTVEASCIRTPELQSMDDQKKISPAALKKTL

Parental  LDRVKLESPTVSTLAPYSPGKLLTRTPAGGGKKD
          LDR.KLESPTVSTLAP.SPGKLLTRTPA.GGKK.
Retrocopy LDRWKLESPTVSTLAPCSPGKLLTRTPAWGGKKN

Legend:

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

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_1521 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000002110	1 retrocopy	retro_lafr_72,
Macaca mulatta	ENSMMUG00000011434	1 retrocopy	retro_mmul_258,
Otolemur garnettii	ENSOGAG00000024897	2 retrocopies	retro_ogar_1366, retro_ogar_1521 ,