RetrogeneDB ID: retro_ogar_1095

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873535.1:18568812..18569546(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000030560
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000016560
• Aliases: None
• Description: None

Sequence

>retro_ogar_1095
ATGGCGGTGCCGGGCCCAGCTCTCTGCCTTTTTGACGTGGATAGGACCCTGACAGCCCTGTGGCGGGAGATTACCAAAGA
AATGGATGGATTTCTGCAAAAATTGAGGCAGAAGATCAAAATTGGAGTGGTAGGCAAGTTGGATTTTGAGAAAGTGCAGG
AGCAGCTGGGAAATAATGTGGTTGAAAAATATGATTACATGTTTCCAGAAAATGGCTTGGTAGCATACAAAGATGGGAAG
CTCTTGTGTAAACAGAATATCCAGGGTCACCTAGATGAGGCTCTAATCTAAGATTTAATCAACTACTATCTGAGTTACGT
TACAAAAATTAAACTCCCAAACAAGAGGGGTCCTTTCGTTGAATTCCGCAATGGGATGTTAAACGTGTCCCGTATTGGAA
GGAGCTGCAGCCAGGAAGAACGCATTGAGTTCTATGAACTCGATAAAAAAGAAAATATAAGACAAAAATTTGTAGCTGAT
CTATGGAAAAGGTTTGCAGGAAAAGGTCTCACAGTTTCATAGGAGGCCAGATCAGCTTTGATGTCTTTCCTGATGGATGG
GACAAAATGTATTGCCTGACACACATGGAAAATGATGGTTATAAGACCATTTATTTCTTTGGAGACAAAACCATGCCAGG
TGGCAATGACCACGAGATCTCTACAGACGCAAGAACCATGGGCTACACTGTGACAGTGTTGGAGGACACATGTAGGATCT
TTGAGAAGCTCTTC

Alignment

ORF - retro_ogar_1095 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.15 %
• Parental protein coverage: 99.59 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAAPGPVLCLFDVDGTLTAPRQKITKEMDGFLQKLRKKIKIGVVGGSDFEKVQEQLGNDVVEKYDYVFPE
          MA.PGP.LCLFDVD.TLTA....ITKEMDGFLQKLR.KIKIGVVG..DFEKVQEQLGN.VVEKYDY.FPE
Retrocopy MAVPGPALCLFDVDRTLTALWREITKEMDGFLQKLRQKIKIGVVGKLDFEKVQEQLGNNVVEKYDYMFPE

Parental  NGLVAFKDGKLLCKQNIQGHLGEALIQDLINYCLSYIAKIKLPKKRGTFIEFRNGMLNVSPIGRSCSQEE
          NGLVA.KDGKLLCKQNIQGHL.EALI.DLINY.LSY..KIKLP.KRG.F.EFRNGMLNVS.IGRSCSQEE
Retrocopy NGLVAYKDGKLLCKQNIQGHLDEALI*DLINYYLSYVTKIKLPNKRGPFVEFRNGMLNVSRIGRSCSQEE

Parental  RIEFYELDKKENIRQKFVADLRKEFAGKGLTFS-IGGQISFDVFPDGWDKRYCLTHVEKEGFKTIYFFGD
          RIEFYELDKKENIRQKFVADL.K.FAGKGLT.S.IGGQISFDVFPDGWDK.YCLTH.E..G.KTIYFFGD
Retrocopy RIEFYELDKKENIRQKFVADLWKRFAGKGLTVS<IGGQISFDVFPDGWDKMYCLTHMENDGYKTIYFFGD

Parental  KTLPGGNDHEIFTDPRTVGYTVTVPEDTRRICEELF
          KT.PGGNDHEI.TD.RT.GYTVTV.EDT.RI.E.LF
Retrocopy KTMPGGNDHEISTDARTMGYTVTVLEDTCRIFEKLF

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_1095 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 11 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001440	2 retrocopies	retro_btau_1188, retro_btau_307,
Cavia porcellus	ENSCPOG00000000235	1 retrocopy	retro_cpor_810,
Homo sapiens	ENSG00000140650	2 retrocopies	retro_hsap_1869, retro_hsap_1913,
Gorilla gorilla	ENSGGOG00000010124	1 retrocopy	retro_ggor_1399,
Monodelphis domestica	ENSMODG00000005737	1 retrocopy	retro_mdom_285,
Nomascus leucogenys	ENSNLEG00000010062	1 retrocopy	retro_nleu_3062,
Otolemur garnettii	ENSOGAG00000016560	1 retrocopy	retro_ogar_1095 ,
Pongo abelii	ENSPPYG00000007084	2 retrocopies	retro_pabe_1583, retro_pabe_1584,
Pan troglodytes	ENSPTRG00000007748	2 retrocopies	retro_ptro_1249, retro_ptro_1279,
Sus scrofa	ENSSSCG00000021236	1 retrocopy	retro_sscr_329,
Tursiops truncatus	ENSTTRG00000014827	2 retrocopies	retro_ttru_1894, retro_ttru_977,