RetrogeneDB ID: retro_ogar_2574

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873635.1:6115640..6117617(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000011961
• Aliases: None
• Description: None

Sequence

>retro_ogar_2574
ATGCCTGAAGAAGTGCACCATGGAGAGGAGGAGATGGAGACCTTTGCCTTTGAGGCAGAAATTGCCCAGCTCATGTCTCT
CATCATCAATACTTTCTGTTCCAACAAGGAAATCTTTCTTCAAGAGTTGATCTTTAATGCTTCTGATGCCTTGGACAAGA
TTCGTTATGACAGCCTGACAGATTCTTCCAAGTTGGACAGTGGTAAAGAGTTAAAAATTGACACCATCCCCAACCCTCAG
GAATGAACTCTGACCTTGGTGGACACAGGCATTGATATGACCAAGGTTGATCTCATAAATAATTTGGGAACTATTGCCAA
ATCTGGTACTAAAGCATTTATGGAGGCTCTTCAGGCTGGTGCAGATATCTCCATGATTGGGCAGTTTGATGTTGGCTTTT
ATTCTGCCTACCTGGTGGCAGAGAAAGTGGTTGTGATCACAAAACACAACGAAGATGAACAGTATACCTAGAAATCTTCT
GCTGGGGGTTCCTTCACTGTGTGTGCTGATCATGGTGAGCCCATTGGCAGGGGCACCAAGGTGATCCTCCACCTTAAAGA
AGACCAGACAAAGTATTTAGAAGAGAGGCAGGTTAAAGAAGTAGTCAAGAAGCACTCACAGTTCATAGGATATCTCATCA
CCCTTTACTTGGAGAAGAAATGACAGAAGGAAATCAGTGACAATGAGGCAGAAGAAAAGAAGGTGAGAAAGAAGAGGAAA
ATAAAGATGATGAGGATAAACCCAAGATCAAAGATGTGGGCTCAGATGAGGAGGATGACAGCAGTAAGGATAAGAAAAAG
AAAACCAAGAAGATTAAGGAAAAATTCATTGATTGGGAAGAATTAAACAAAACCAAGCCCATTTGGACCAGAAACCCTGA
TGACATCACCCAGAAGGAGTATGGAGAATTCTACAAGAGCCTCACCAATGACTGGGAAGACCACTTGGCAGTCAAGCACT
TTTCTGTAGGAGGTCAGTTGGAATTCATGGCATTGCTTTTCATCCCCCATCAGGGTCCCTTTGACCTCTTTGAGAACAAA
AAGAAAAAGAATAACATTAAACTATATGTCCGTCATGTGTTCATCATGGACAGTTGTGATGAGTTGATACCAGAGTATCT
CAACTTTACCCATGGTGTGGTTGACTCTAAGGATCTGCCCTCGAACATTTCCTGAGAAATGCTTCAGCAGAGCAAAATCT
TGAAAGTGATTTGCAAGAAACATTGTTAAGGAGTGCCTTGAGCTCTTTTCTGAGTTGACAGAAGATAAGGAGAACTGTAA
GAAATTCTATGAGGCATTCTCTAAAAATTTGAAGCTTGGAATACATGAGGACTCCACTAACCGGCACCATCTGTCTGAGC
TGCTGTGCTATCATATCTCCCAATCTGAAGATGAGATGACTTCTCTGTCAGAGCCTGTCTCTTGCATGAAGAAAACGCAG
AAGTCTATCTATTACATCACTGGTGAGAGCAAAGAGCAGGTGGCCAACTCTGCGTTTGTGGAGCAAGTGTGGAAGTGGGG
CTTTGAGGTGGAATATATGACTGAGCCCATTGATGAGTACTATGTGCAGCAGCTCAAGGAGTTTGATGGGAAGAGCCCAG
TCTCAGTTGCCAAGGAGGGCCTGGAGCTGCCTGAGGATGAGGAAGAGAAGAAGAAAATGAAAGAGAGCAAGGCAAAGCTT
GGGAACCTCTGCAAGCTCATGAAAGAAATCTTGGATAAGAAAGTCGAGAAGGTGACAATCTCCAGTAGGCTTGTGTCTTC
ATCCTGCTGCATTGTGATCAGTACCTATGGCTGGACAGCCAACATGGAGTGGATGATGGAAGCCCAGGTGCTTTGGGACA
ACTCTACAATGGGCTATATGATGGCCAAAAAACACCTGGCGATAAACCCTGTCCACCCCATTGTGTAGACACTGTGGCAG
AAGGCTGAGGCAGAAAAAAGTGACAAGGCTGTAAAGGACCTGGTGGTGCTGCTATTT

Alignment

ORF - retro_ogar_2574 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.9 %
• Parental protein coverage: 91.02 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MPEEVHHGEEEVETFAFQAEIAQLMSLIINTFYSNKEIFLRELISNASDALDKIRYESLTDPSKLDSGKE
          MPEEVHHGEEE.ETFAF.AEIAQLMSLIINTF.SNKEIFL.ELI.NASDALDKIRY.SLTD.SKLDSGKE
Retrocopy MPEEVHHGEEEMETFAFEAEIAQLMSLIINTFCSNKEIFLQELIFNASDALDKIRYDSLTDSSKLDSGKE

Parental  LKIDIIPNPQERTLTLVDTGIGMTKADLINNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYLVA
          LKID.IPNPQE.TLTLVDTGI.MTK.DLINNLGTIAKSGTKAFMEALQAGADISMIGQF.VGFYSAYLVA
Retrocopy LKIDTIPNPQE*TLTLVDTGIDMTKVDLINNLGTIAKSGTKAFMEALQAGADISMIGQFDVGFYSAYLVA

Parental  EKVVVITKHNDDEQYAWESSAGGSFTVRADHGEPIGRGTKVILHLKEDQTEYLEERRVKEVVKKHSQFIG
          EKVVVITKHN.DEQY...SSAGGSFTV.ADHGEPIGRGTKVILHLKEDQT.YLEER.VKEVVKKHSQFIG
Retrocopy EKVVVITKHNEDEQYT*KSSAGGSFTVCADHGEPIGRGTKVILHLKEDQTKYLEERQVKEVVKKHSQFIG

Parental  YPITLYLEKEREKEISDDEAEEEK-GEKEEEDKDDEEKPKIEDVGSDEEDDSSKDKKKKTKKIKEKYIDR
          Y.ITLYLEK...KEISD.EAEE.K.GEKEEE.KDDE.KPKI.DVGSDEEDDSSKDKKKKTKKIKEK.ID.
Retrocopy YLITLYLEKK*QKEISDNEAEEKK<GEKEEENKDDEDKPKIKDVGSDEEDDSSKDKKKKTKKIKEKFIDW

Parental  EELNKTKPIWTRNPDDITQEEYGEFYKSLTNDWEDHLAVKHFSVEGQLEFRALLFIPRRAPFDLFENKKK
          EELNKTKPIWTRNPDDITQ.EYGEFYKSLTNDWEDHLAVKHFSV.GQLEF.ALLFIP...PFDLFENKKK
Retrocopy EELNKTKPIWTRNPDDITQKEYGEFYKSLTNDWEDHLAVKHFSVGGQLEFMALLFIPHQGPFDLFENKKK

Parental  KNNIKLYVRRVFIMDSCDELIPEYLNFIRGVVDSEDLPLNISREMLQQSKILKVIRK-NIVKKCLELFSE
          KNNIKLYVR.VFIMDSCDELIPEYLNF..GVVDS.DLP.NIS.EMLQQSKILKVI.K.NIVK.CLELFSE
Retrocopy KNNIKLYVRHVFIMDSCDELIPEYLNFTHGVVDSKDLPSNIS*EMLQQSKILKVICK>NIVKECLELFSE

Parental  LAEDKENYKKFYEAFSKNLKLGIHEDSTNRRRLSELLRYHTSQSGDEMTSLSEYVSRMKETQKSIYYITG
          L.EDKEN.KKFYEAFSKNLKLGIHEDSTNR..LSELL.YH.SQS.DEMTSLSE.VS.MK.TQKSIYYITG
Retrocopy LTEDKENCKKFYEAFSKNLKLGIHEDSTNRHHLSELLCYHISQSEDEMTSLSEPVSCMKKTQKSIYYITG

Parental  ESKEQVANSAFVERVRKRGFEVVYMTEPIDEYCVQQLKEFDGKSLVSVTKEGLELPEDEEEKKKMEESKA
          ESKEQVANSAFVE.V.K.GFEV.YMTEPIDEY.VQQLKEFDGKS.VSV.KEGLELPEDEEEKKKM.ESKA
Retrocopy ESKEQVANSAFVEQVWKWGFEVEYMTEPIDEYYVQQLKEFDGKSPVSVAKEGLELPEDEEEKKKMKESKA

Parental  KFENLCKLMKEILDKKVEKVTISNRLVSSPCCIVTSTYGWTANMERIMKAQALRDNSTMGYMMAKKHLEI
          K..NLCKLMKEILDKKVEKVTIS.RLVSS.CCIV.STYGWTANME..M.AQ.L.DNSTMGYMMAKKHL.I
Retrocopy KLGNLCKLMKEILDKKVEKVTISSRLVSSSCCIVISTYGWTANMEWMMEAQVLWDNSTMGYMMAKKHLAI

Parental  NPDHPIVETLRQKAEADKNDKAVKDLVVLLF
          NP.HPIV.TL.QKAEA.K.DKAVKDLVVLLF
Retrocopy NPVHPIV*TLWQKAEAEKSDKAVKDLVVLLF

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_2574 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 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001981	4 retrocopies	retro_cfam_1108, retro_cfam_411, retro_cfam_562, retro_cfam_881,
Felis catus	ENSFCAG00000009764	1 retrocopy	retro_fcat_1177,
Gorilla gorilla	ENSGGOG00000008889	2 retrocopies	retro_ggor_1011, retro_ggor_701,
Macropus eugenii	ENSMEUG00000013735	1 retrocopy	retro_meug_1896,
Myotis lucifugus	ENSMLUG00000005239	2 retrocopies	retro_mluc_1604, retro_mluc_865,
Mus musculus	ENSMUSG00000023944	3 retrocopies	retro_mmus_1916, retro_mmus_3528, retro_mmus_856,
Otolemur garnettii	ENSOGAG00000011961	1 retrocopy	retro_ogar_2574 ,
Pongo abelii	ENSPPYG00000016655	2 retrocopies	retro_pabe_2425, retro_pabe_415,
Pan troglodytes	ENSPTRG00000018217	4 retrocopies	retro_ptro_1850, retro_ptro_1968, retro_ptro_2003, retro_ptro_880,
Tupaia belangeri	ENSTBEG00000014873	1 retrocopy	retro_tbel_1428,