RetrogeneDB ID: retro_ogar_706

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873526.1:18879620..18880388(+)
• Located in intron of: ENSOGAG00000003331

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000002538
• Aliases: None
• Description: None

Sequence

>retro_ogar_706
GACCTTGTTCAAGCTTACCCACCTCTGGAAGAAAGAATCAGACTTCTAGAGGTCAGTTTGTTCAAAGAGTGGGCCCTCAG
GGCCTTCTGCATGTCGGCAAAGATATCTCACAGTGATTTCCCCAAAGGATGTCTCCATCTCCATTCTTGGCTCTGATAAT
GTCATCCTGTCACATTGTGGTCCTGAGGTACACAGGTAATACAGCTACCTGCTTGACATATTGCATATTGCATGAAACCT
TTACCAAACATGAAGTCTCCTTGATCATGAACTCCATCAAATCCTTTTCCCACCATGTTCAATATGGAAAGCTTGACATA
TGCCTTGTAGGAGGATTCAGTGACAATAGGTAGTTGTCACAAAAACATACTCACCAACTTCTCACTGATTTCAACAATGA
GATGACATTCATTTAGTGACATTATGTGTGACAGAATTAAATGACCAAGAAGAAAATGAAAGCCACTCTCCAATAATTTA
TAGCATTGCTGTCAACATTAAAACTGCAGAAATTTACAAAGCCTCCTTTCACAATCACAGTACTGAGGAGGAGCTGACAG
TTGTGCCAGACTTCAGCTGGAGGACCAATGAGTAGCTTTACAATGCAAAAACTGAAAACTTCACGTAGGACTGGATTCCT
GAATTCCAACTCCAAATGTGCGTTTCTGGTGGCAGCAAGATAATAACCATACACTAGAAAAGCTTTCTATTACATCTTTG
GGCAACATCCCTACCCCTTTCACTGAACATATTAGATTCACCTTGATT

Alignment

ORF - retro_ogar_706 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.88 %
• Parental protein coverage: 82.48 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  DLVRAHPPLEERARLL-RGQSVQQVGPQGLLYV-QQRELAVTSPKDGSISILGSDDATTCH-IVVLRHTG
          DLV.A.PPLEER.RLL.RGQ.VQ.VGPQGLL.V..QR.L.V.SPKD.SISILGSD.....H..V..R.TG
Retrocopy DLVQAYPPLEERIRLL<RGQFVQRVGPQGLLHV<RQRYLTVISPKDVSISILGSDNVILSH>VVL-RYTG

Parental  NGATCLTHC--DGSNTKAEVPLIMNSIKSFSDHTQCGRLEVHLVGGFSDDRQLSQKLTHQLLSEFDSQ-E
          N.ATCLT.C......TK.EV.LIMNSIKSFS.H.Q.G.L...LVGGFSD.R.LSQK.THQLL..F.....
Retrocopy NTATCLTYCILHETFTKHEVSLIMNSIKSFSHHVQYGKLDICLVGGFSDNR*LSQKHTHQLLTDFNNE<D

Parental  DDIHLVTLCVTGPRTSHDRTYDTSHEPTVGGRAVNVKTAEIYRASFQDRGPEEEL-RAARALTGGPMIS-
          D.IHLVTLCVT......D.....SH.P.....AVN.KTAEIY.ASF.....EEEL........GGPM.S.
Retrocopy D-IHLVTLCVT---ELNDQEENESHSPIIYSIAVNIKTAEIYKASFHNHSTEEEL>QLCQTSAGGPMSS<

Parental  IYDAKTE-QLQIGPYSWMPFPHVDFWLQQDDKEILENFSTSPLAE-PPHFVEHIRSTLM
          .Y.AKTE..L..G..S..P.P.V.FW.QQD....LE..S...L...P..F.EHIR.TL.
Retrocopy LYNAKTE<KLHVGLDS*IPTPNVRFWWQQDNNHTLEKLSITSLGNIPTPFTEHIRFTLI

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_706 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 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003857	1 retrocopy	retro_acar_62,
Choloepus hoffmanni	ENSCHOG00000011818	3 retrocopies	retro_chof_1148, retro_chof_1591, retro_chof_2046,
Dasypus novemcinctus	ENSDNOG00000016017	5 retrocopies	retro_dnov_1068, retro_dnov_1159, retro_dnov_129, retro_dnov_874, retro_dnov_97,
Echinops telfairi	ENSETEG00000014054	1 retrocopy	retro_etel_1914,
Microcebus murinus	ENSMICG00000014995	2 retrocopies	retro_mmur_1479, retro_mmur_959,
Myotis lucifugus	ENSMLUG00000003455	1 retrocopy	retro_mluc_1398,
Mustela putorius furo	ENSMPUG00000014327	1 retrocopy	retro_mputfur_762,
Otolemur garnettii	ENSOGAG00000002538	2 retrocopies	retro_ogar_706 , retro_ogar_78,
Pteropus vampyrus	ENSPVAG00000002982	1 retrocopy	retro_pvam_626,
Tupaia belangeri	ENSTBEG00000014096	2 retrocopies	retro_tbel_3921, retro_tbel_905,