RetrogeneDB ID: retro_ogar_654

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873525.1:21963555..21964366(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM92A1
• Ensembl ID: ENSOGAG00000002972
• Aliases: None
• Description: family with sequence similarity 92, member A1 [Source:HGNC Symbol;Acc:30452]

Sequence

>retro_ogar_654
GATGTTCAAACCAAACAACTACAAGATGCTGTCACAAATGTGGAGAAGCATTTTGAGAGCTGTGCCAAATCTTTGCTGCC
CATGTGTGGAAAATTGCCAGGCTACAATACAGAGCAGAACTTTTAGTGAATGAAATTAATGTGTATGCATCTACAGAGAC
CCACAATATAAAGGAGGGATTGAAAAATTTTGCAGATGAATTTGCCAAACTTCAGGATTATTGACAAGCAGAGGTTAAAG
ACTTGAAGCCAAAGTAGTGGAATCTTTGAAAGCTTATGGAGCCACTGTGAAAAATGAAACAGGATGATCTCAAAGCAACA
TTAACAGTAAGGAATCTAGAAAGAGTTAACTCAGAAAGAACATGACAGCAAAACCCATCTGTTATTTCACAGGCAGAAAT
TGAATTGCATAGAGCTACAATAGATGCCACCCAAACAACTCATCATCTAGAGGAAACTATTGATAATTTTGAAAAGCAGA
AAATAAGGGATATAAAGAATGTATTTTCAGAATTTATCATAATTGAAATGTTATTTCACAGCAAAGCTTTAGAGGTCTAC
ACTGCTGCCTACCATAACATACAGAAGATTAATGAGAATAAAGATTTAGAGATTTCCAATATTCTCTGTATCCACTAGAT
TATTAATCTCATTTTGATGTAAGAGCAAATTCAAAGTTGCCTCTTCAGAGATCACTATCAGCTAAGTGTGTATCGGGGAC
AGGACAGGTATCTAATTGTCAACTAAAAAAGGATCAACAAGCAGGAGATGATAATGAAGATAAAGAGTCAGATATTACAG
AAGAAGAAAAT

Alignment

ORF - retro_ogar_654 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.89 %
• Parental protein coverage: 96.84 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  DAQTKQLQDAVTNVEKHFG-ELCQIFAAYVRKTARLRDKADLLVNEINVYASTETPNLKQGLKNFADEFA
          D.QTKQLQDAVTNVEKHF..ELCQIFAA.V.K.ARL...A.LLVNEINVYASTET.N.K.GLKNFADEFA
Retrocopy DVQTKQLQDAVTNVEKHFE<ELCQIFAAHVWKIARLQYRAELLVNEINVYASTETHNIKEGLKNFADEFA

Parental  KLQDYRQAEVE-RLEAKVVEPLKAYGTIV-KMKRDDLKATLTARNREAKQLTQLERTRQRNPSDRHVIAE
          KLQDY.QAEV..RLEAKVVE.LKAYG..V.KMK.DDLKATLT.RN.E.......ERT.Q.NPS...VI..
Retrocopy KLQDY*QAEVK<RLEAKVVESLKAYGATV>KMKQDDLKATLTVRNLER---VNSERT*QQNPS---VISQ

Parental  TE--LQRATIDATRTTRHLEETIDNFEKQKIKDIKNVFSEFITIEMLFHGKALEVYTAAYQNIQKIDEDE
          .E..L.RATIDAT.TT.HLEETIDNFEKQKI.DIKNVFSEFI.IEMLFH.KALEVYTAAY.NIQKI.E..
Retrocopy AEIELHRATIDATQTTHHLEETIDNFEKQKIRDIKNVFSEFIIIEMLFHSKALEVYTAAYHNIQKINENK

Parental  DLEV-FRNSLYPQDYSSRLDIVRANSKSPLQRSLSAKCVSGTGQVSTCRLRKDQQAEDDDEDEELDITED
          DLE..F..SLYP.DY.S..D.VRANSK.PLQRSLSAKCVSGTGQVS.C.L.KDQQA.DD.ED.E.DITE.
Retrocopy DLEI<FQYSLYPLDY*SHFD-VRANSKLPLQRSLSAKCVSGTGQVSNCQLKKDQQAGDDNEDKESDITEE

Parental  EN
          EN
Retrocopy EN

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_654 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 15 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000009105	1 retrocopy	retro_cfam_1072,
Echinops telfairi	ENSETEG00000013003	1 retrocopy	retro_etel_522,
Homo sapiens	ENSG00000188343	1 retrocopy	retro_hsap_1485,
Gorilla gorilla	ENSGGOG00000006452	1 retrocopy	retro_ggor_1137,
Loxodonta africana	ENSLAFG00000003954	1 retrocopy	retro_lafr_201,
Microcebus murinus	ENSMICG00000006797	1 retrocopy	retro_mmur_415,
Monodelphis domestica	ENSMODG00000007447	2 retrocopies	retro_mdom_1239, retro_mdom_827,
Mustela putorius furo	ENSMPUG00000009112	1 retrocopy	retro_mputfur_1183,
Nomascus leucogenys	ENSNLEG00000002773	1 retrocopy	retro_nleu_1707,
Otolemur garnettii	ENSOGAG00000002972	1 retrocopy	retro_ogar_654 ,
Oreochromis niloticus	ENSONIG00000002446	1 retrocopy	retro_onil_57,
Procavia capensis	ENSPCAG00000011171	1 retrocopy	retro_pcap_272,
Pongo abelii	ENSPPYG00000018744	2 retrocopies	retro_pabe_1235, retro_pabe_2497,
Tarsius syrichta	ENSTSYG00000012502	1 retrocopy	retro_tsyr_975,
Tursiops truncatus	ENSTTRG00000012378	1 retrocopy	retro_ttru_45,