RetrogeneDB ID: retro_ogar_1

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873668.1:2721802..2722642(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000033982
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: HUS1
• Ensembl ID: ENSOGAG00000012683
• Aliases: None
• Description: HUS1 checkpoint homolog (S. pombe) [Source:HGNC Symbol;Acc:5309]

Sequence

>retro_ogar_1
ATGAAGTTTCGTGCCAAGATCTCCAGCAAGGGCTTCATAGAGGTCTTCATCCAGCTCAGCGGCACCGTCGCGAAGCTGGC
GAAGGTCTGTGTGCTCCGCGTGTGCCCCGACAAGCTGTGCTTCAGCTCCGCGGGCTCCACGCCCGTCCGCGCCGACAGGC
TGTGGTGTGAGGTGGGGCGGGGAGCCCTTTTCCGCCAGTTTCACATGGAGGGGGTTTCGGAAGAACTCAACGAGATTTAT
CTGGAGCTGACTTCAGAGCATTTGTTCAGAGCAGTGAAAAACGCGCGGAACGCTGCCTCTCTGAAACTCCAGCTGACTAA
GAAGCGTCGCCCCTGCCTCACGGTGGCGGTGGAGCTGGCGTCCTGCACGGGTCACACTCGTGTGGTGGTCCATGATCTGC
CTGTGAGGGTGCTTCCCAGAATATTGTGGAAAGATTGCCTGAAGCCCCGTGTCCGAGCCTGCGATGTGAGCGTTTATCTG
CCAGCTCTGAAGACACTGAAGAGTATTGTGGAAAAGATGGCGAACATGGGCGACTACATGCTGGTGGAAGCAAATCGAAA
TGGTCAAATGAACTTGAGTATAGAAACTGATACAGTGTCTATTAAAAGTTACTTTAAAAATCTTGGAAATCCTCCAGAGT
CTACTCTGGCTACACCTCAAAACCGAGACCAGGAAAGAATGGTACAAGTGTGGGTAGACAAAAGGAAGCTTCTGCAGTTT
TTTGAGGGACAGCAGATAAATCCCACAATGGCAGTATGCAATATTTTGAGCAATACTCTTCTTCATCTTGTTTTGGTTCA
TGAAGATGTCTCCATTCAGTATTCTATTCCTGCCTCATGA

Alignment

ORF - retro_ogar_1 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.08 %
• Parental protein coverage: 99.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKFRGKIVDGACLNHFTRVSNMIAKLAKTCTLRISPDKLNFILSDKLTSGGVSMWCELEQENFFSEFQME
          MKFR.KI........F...S...AKLAK.C.LR..PDKL.F.............WCE......F..F.ME
Retrocopy MKFRAKISSKGFIEVFIQLSGTVAKLAKVCVLRVCPDKLCFSSAGSTPVRADRLWCEVGRGALFRQFHME

Parental  GVSAENNEIYVELTSENLSRALKTAQNARALKIKLTNKHFPCLTVSVDLLSVSSSSRIVTHDIPIKVIPR
          GVS.E.NEIY.ELTSE.L.RA.K.A.NA..LK..LT.K..PCLTV.V.L.S.....R.V.HD.P..V.PR
Retrocopy GVSEELNEIYLELTSEHLFRAVKNARNAASLKLQLTKKRRPCLTVAVELASCTGHTRVVVHDLPVRVLPR

Parental  KLWKDLQEPVVPHPDVSIYLPVLKTMKSVVEKMKNISNHLVIEANLNGELNLKIETELVCVTTHFKDLGN
          .LWKD...P.V...DVS.YLP.LKT.KS.VEKM.N.......EAN.NG..NL.IET..V.....FK.LGN
Retrocopy ILWKDCLKPRVRACDVSVYLPALKTLKSIVEKMANMGDYMLVEANRNGQMNLSIETDTVSIKSYFKNLGN

Parental  PSLASENASQDRNPEQMAEVHLDIKKLLQFLVGQQVNPTKALCNIVRNKMVHFDLLHEDVSLQYFIPA
          P........Q.R..E.M..V..D..KLLQF..GQQ.NPT.A.CNI..N...H..L.HEDVS.QY.IPA
Retrocopy PPESTLATPQNRDQERMVQVWVDKRKLLQFFEGQQINPTMAVCNILSNTLLHLVLVHEDVSIQYSIPA

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_1 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001764	4 retrocopies	retro_chof_1438, retro_chof_1958, retro_chof_2084, retro_chof_898,
Dipodomys ordii	ENSDORG00000006582	1 retrocopy	retro_dord_182,
Echinops telfairi	ENSETEG00000009941	2 retrocopies	retro_etel_1764, retro_etel_1797,
Nomascus leucogenys	ENSNLEG00000004497	1 retrocopy	retro_nleu_2321,
Oryctolagus cuniculus	ENSOCUG00000027263	1 retrocopy	retro_ocun_761,
Otolemur garnettii	ENSOGAG00000012683	1 retrocopy	retro_ogar_1 ,
Pongo abelii	ENSPPYG00000025821	1 retrocopy	retro_pabe_151,
Sorex araneus	ENSSARG00000012348	1 retrocopy	retro_sara_391,
Ictidomys tridecemlineatus	ENSSTOG00000027204	1 retrocopy	retro_itri_151,