RetrogeneDB ID: retro_ogar_1490

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873549.1:15255134..15255622(+)
• Located in intron of: ENSOGAG00000008268

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM64A
• Ensembl ID: ENSOGAG00000027433
• Aliases: None
• Description: family with sequence similarity 64, member A [Source:HGNC Symbol;Acc:25483]

Sequence

>retro_ogar_1490
GAACCAGGGTGGCAGGACCTACAGACTGTGGCTCCATCAGCTAAGAAAGCCTTGAGTACCACATCCAGAAAATCAAAGAG
TCCTGCCAGAGTGGTGCCAAGTGCCTGGTGGAGATCCAGGTGAAAGCCAGGAGGAGGAAGAGAGGGACCAGAAGGACAGT
AGACCCTCAACCCATAGCCTGAGCCAGAAGAGCACCCAGTGCCTGGAGCCTCCCCGGCCCACTGAGCTATGGAACCCTGA
GAGAGGGATCACCATCCCTCTGTTCAGATGGCCTGTGTACCCCCTTCACCCTACTAGGGTGGTCAAGGAGGGAGGCTGCC
TTCTGGAACCCCTACTCAATAGAGCCTCTCTGCTCTTCCAGCAAGTCTGCTAATTACTGAGAGCCTGTGGGGGCAAGAAT
TCCACATTTCCAGAAACTGTCCCAAGAACCAGACAATGCCATTATGGCTGAAGGCACCAGCAACATGACTGTCTTACTCC
TTCATGAC

Alignment

ORF - retro_ogar_1490 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.65 %
• Parental protein coverage: 69.2 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  ESGQQDVQGAARSAKSALGAMS-QRIQESCQSGTKWLVETHVKARKGKRGA-QKDNSLPAHSLTQKSTR-
          E.G.QD.Q..A.SAK.AL...S.Q.I.ESCQSG.K.LVE..VKAR..KRG..QKD.....HSL.QKST..
Retrocopy EPGWQDLQTVAPSAKKALSTTS<QKIKESCQSGAKCLVEIQVKARRRKRGT<QKDSRPSTHSLSQKSTQ<

Parental  LSRATPVHSTTDSWERGHHYRSIQM-GLRTP--QLRRSRREAAFQSPYSSTEPLCSPSEPDGDLEPVGAG
          ...A.P.H......ER.HH..S.QM.GL.TP...L..SRREAAF..PYS..EPLCS.S......EPVGA.
Retrocopy VPGASPAH*AMEP*ERDHH-PSVQM<GLCTPFTLLGWSRREAAFWNPYS-IEPLCSSSKSANY*EPVGAR

Parental  IQHLQKLSQELDKAIMAEDSSDMTVFLIHD
          I.H.QKLSQE.D.AIMAE..S.MTV.L.HD
Retrocopy IPHFQKLSQEPDNAIMAEGTSNMTVLLLHD

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_1490 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 10 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006997	1 retrocopy	retro_amel_1136,
Homo sapiens	ENSG00000129195	3 retrocopies	retro_hsap_2371, retro_hsap_3030, retro_hsap_3071,
Gorilla gorilla	ENSGGOG00000012309	3 retrocopies	retro_ggor_1801, retro_ggor_2091, retro_ggor_2109,
Macaca mulatta	ENSMMUG00000017760	3 retrocopies	retro_mmul_1778, retro_mmul_1935, retro_mmul_959,
Mus musculus	ENSMUSG00000020808	1 retrocopy	retro_mmus_3385,
Nomascus leucogenys	ENSNLEG00000009164	3 retrocopies	retro_nleu_361, retro_nleu_725, retro_nleu_843,
Otolemur garnettii	ENSOGAG00000027433	1 retrocopy	retro_ogar_1490 ,
Pongo abelii	ENSPPYG00000007877	3 retrocopies	retro_pabe_2141, retro_pabe_2509, retro_pabe_2545,
Pan troglodytes	ENSPTRG00000008641	3 retrocopies	retro_ptro_1734, retro_ptro_2044, retro_ptro_2070,
Rattus norvegicus	ENSRNOG00000008040	1 retrocopy	retro_rnor_1325,