RetrogeneDB ID: retro_ogar_2971

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873691.1:1334357..1335081(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000006975
• Aliases: None
• Description: None

Sequence

>retro_ogar_2971
AGTGCGCCCAGTGCTGGATTCTGAACTTGTGAGCTGAGCAGTGGGCAGCGGGAATAAGACTGGGATGCTGCGGCGCCCAA
GAGGCCCTGACCCGTGGCAGGAAGCAAGATCGGTGGCCATAGGCTCATTGTAGTGCTGGAAGGGGCCAGTCTGGAGACAG
TCAAGGTAGGAAAGACATATGAGCTGCTCAACTGTGACAAGCACAAGTCTATGTTGTTGAAGAATGGATGGGACCCTGGG
GAAGTGAGACCAGACATAGCCCATCAGAGTTTACTGATGCTGATGGACAGTCCCTTCAACCGAGCTGGCTTGCTACAGAT
TTATATCCACACGCAGAAGAATGTTCTGATTGAAGTGAATCCCCAGACTCGAATTCCCAGAACCTTTGACCATTTTTGTG
GACTTATGGCTTTTACACAAATTGAGTGTTCGAGCAGCTGATGGCCCCCAGAAGCTCTTGAAGGTAATTAAGAATCCAGT
ATCAGATCACTTCCCAGTTGGATGTATGAAGATTGGCACTTCTTTCTCTATTCCAGTAATCAGTGATGTGTGAGAGTTGG
TACCCAGCAGTGATCCTGTTGTTTTTGTGGTGGGGGCTTTTGCCCATGGCAAGGTCAGTGTGGAGTATATAGAGAAAATG
GTGTCCATCAGCAACTACCCCCCATCTGCTGCCCTCACCTGTGCAAAACTCACCACAGCCTTTGAAGAAGTGTGGGGAGT
CATG

Alignment

ORF - retro_ogar_2971 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.48 %
• Parental protein coverage: 99.59 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AAPSAGFRTRELSCGQREQDWDATAPKRPRLGAGSKIGGRRLIVVLEGASLETVKVGKTYELLNCDKHKS
          .APSAGF.T.ELS.GQRE.DWDA.APKRP...AGSKIGG.RLIVVLEGASLETVKVGKTYELLNCDKHKS
Retrocopy SAPSAGF*TCELSSGQRE*DWDAAAPKRP*PVAGSKIGGHRLIVVLEGASLETVKVGKTYELLNCDKHKS

Parental  MLLKNGRDPGEVRPDIAHQSLLMLMDSPLNRAGLLQVYIHTQKNVLIEVN-PQTRIPRTFDRFCGLMVQL
          MLLKNG.DPGEVRPDIAHQSLLMLMDSP.NRAGLLQ.YIHTQKNVLIEVN.P....P.....F..L...L
Retrocopy MLLKNGWDPGEVRPDIAHQSLLMLMDSPFNRAGLLQIYIHTQKNVLIEVN>PRLEFPEPLTIFVDLW--L

Parental  LHKLSVRAADGPQKLLKVIKNPVSDHFPVGCMKIGTSFSIPVVSDVRELVPSSDPVVFVVGAFAHGKVSV
          LHKLSVRAADGPQKLLKVIKNPVSDHFPVGCMKIGTSFSIPV.SDV.ELVPSSDPVVFVVGAFAHGKVSV
Retrocopy LHKLSVRAADGPQKLLKVIKNPVSDHFPVGCMKIGTSFSIPVISDV*ELVPSSDPVVFVVGAFAHGKVSV

Parental  EYTEKMVSISNYPLSAALTCAKLTTAFEEVWGVI
          EY.EKMVSISNYP.SAALTCAKLTTAFEEVWGV.
Retrocopy EYIEKMVSISNYPPSAALTCAKLTTAFEEVWGVM

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_2971 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013753	1 retrocopy	retro_amel_1924,
Callithrix jacchus	ENSCJAG00000007120	1 retrocopy	retro_cjac_2960,
Gorilla gorilla	ENSGGOG00000004287	1 retrocopy	retro_ggor_3077,
Macropus eugenii	ENSMEUG00000000831	1 retrocopy	retro_meug_1299,
Myotis lucifugus	ENSMLUG00000009196	1 retrocopy	retro_mluc_737,
Macaca mulatta	ENSMMUG00000010207	1 retrocopy	retro_mmul_671,
Nomascus leucogenys	ENSNLEG00000005080	1 retrocopy	retro_nleu_501,
Otolemur garnettii	ENSOGAG00000006975	2 retrocopies	retro_ogar_2971 , retro_ogar_945,
Pongo abelii	ENSPPYG00000004215	1 retrocopy	retro_pabe_2924,
Rattus norvegicus	ENSRNOG00000012828	1 retrocopy	retro_rnor_1459,