RetrogeneDB ID: retro_ogar_490

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873522.1:34680458..34681361(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000011388
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SLC25A15
• Ensembl ID: ENSOGAG00000009380
• Aliases: None
• Description: solute carrier family 25 (mitochondrial carrier; ornithine transporter) member 15 [Source:HGNC Symbol;Acc:10985]

Sequence

>retro_ogar_490
ATGAAGTCCAGTCCTGGCATCCAAGCCGTGATCGACCTCACAGCTGGGGCCTCAGGGGGCACCGCGTGTGTACTGGCCGG
GCAGCCCTTTGACACAATGAAAGTGAAGATGCAGACGTTCCCCTACCTGTACAAGGGTCTCATCAACTGCTTCCTGAAGA
CATACAAGCAAGTGGGTATCCGGGGCTTCTACAAGGGAACCGGCCCAGCGCTGACGGCCTACGTCTCGGAAAACTCCGTT
CTCTTCATGTGCTACGGGTTCTGCCAACAGTTTGTCAGGGAAGTGGTTGGACTGGACAAGCAGGCACAGCTGAGTGATCT
GCAGAAGGCAGTTGCCGGGTCCTTAGCGTCTTCTTTTGCTGCGCTGGCCCTCTGCCCCACTGAGCTTGTGAAGTGCCGCC
TACAAACTATGTATGAAATGGAAATGTCAGGGAAGATAGCAAAAAGCCATAATACAATTTGGTCTGTCGTGAAAAGTATC
CTTAGAAAAGATGGCCTTTTAGGCTTCTACCATGGACTCTCCAGTACTCTCCTTCAAGAAGTACCAGGCTATTTCTTCTT
CTTTGGTGGCTATGAAATGAGCCGTTCATATTTTGCCTCAGGAAGATCAAAAGATGAACTAGGTCCTGCCCATTTGATGT
TCAGTGGTGGAGTTGCTGGAATTTCCCTCTGGCTTGTTGTGTTTCCAGTGGATTGTATTAAATCCAGAATTCAAGTTCTT
TCCATGCATGGAAAACAGGCAGGATTTATAGGGACTCTTTCAAGTGTTGTGAGAAATGAAGGAATAGCAGTTTTATATTC
TGGACTGACAGCTACTATGGTTCGAGCATTCCCTGCCAATGGGACACTATTTTTGGTCTATGAGTATAGCAGGAAGATGA
TGATGAGCCAGCTGGAAGCACAC

Alignment

ORF - retro_ogar_490 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.73 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKSNPAIQAAIDLTAGAAGGTACVLTGQPFDTMKVKMQTFPDLYRGLTDCCLKTYAQVGFRGFYKGTSPA
          MKS.P.IQA.IDLTAGA.GGTACVL.GQPFDTMKVKMQTFP.LY.GL..C.LKTY.QVG.RGFYKGT.PA
Retrocopy MKSSPGIQAVIDLTAGASGGTACVLAGQPFDTMKVKMQTFPYLYKGLINCFLKTYKQVGIRGFYKGTGPA

Parental  LIANIAENSVLFMCYGFCQQVVRKMVGLDKQAKLSDLQNAAAGSFASAFAALVLCPTELVKCRLQTMYEM
          L.A...ENSVLFMCYGFCQQ.VR..VGLDKQA.LSDLQ.A.AGS.AS.FAAL.LCPTELVKCRLQTMYEM
Retrocopy LTAYVSENSVLFMCYGFCQQFVREVVGLDKQAQLSDLQKAVAGSLASSFAALALCPTELVKCRLQTMYEM

Parental  ETSGKITKSQNTVWSVVKSILRKDGPLGFYHGLSSTLLREVPGYFFFFGGYELSRSFFASGRSKDELGPV
          E.SGKI.KS.NT.WSVVKSILRKDG.LGFYHGLSSTLL.EVPGYFFFFGGYE.SRS.FASGRSKDELGP.
Retrocopy EMSGKIAKSHNTIWSVVKSILRKDGLLGFYHGLSSTLLQEVPGYFFFFGGYEMSRSYFASGRSKDELGPA

Parental  PLMLSGGVGGICLWLAVYPVDCIKSRIQVLSMSGKQAGFIGTFINVVKNEGIIALYSGLKPTMIRAFPAN
          .LM.SGGV.GI.LWL.V.PVDCIKSRIQVLSM.GKQAGFIGT...VV.NEGI..LYSGL..TM.RAFPAN
Retrocopy HLMFSGGVAGISLWLVVFPVDCIKSRIQVLSMHGKQAGFIGTLSSVVRNEGIAVLYSGLTATMVRAFPAN

Parental  GALFLAYEYSRKLMMSQLEAY
          G.LFL.YEYSRK.MMSQLEA.
Retrocopy GTLFLVYEYSRKMMMSQLEAH

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_490 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 14 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017797	1 retrocopy	retro_cjac_1776,
Cavia porcellus	ENSCPOG00000005570	2 retrocopies	retro_cpor_105, retro_cpor_107,
Equus caballus	ENSECAG00000007666	1 retrocopy	retro_ecab_72,
Homo sapiens	ENSG00000102743	1 retrocopy	retro_hsap_44,
Gorilla gorilla	ENSGGOG00000025261	1 retrocopy	retro_ggor_2294,
Microcebus murinus	ENSMICG00000007218	1 retrocopy	retro_mmur_18,
Macaca mulatta	ENSMMUG00000022585	1 retrocopy	retro_mmul_199,
Nomascus leucogenys	ENSNLEG00000001185	1 retrocopy	retro_nleu_1704,
Otolemur garnettii	ENSOGAG00000009380	1 retrocopy	retro_ogar_490 ,
Pongo abelii	ENSPPYG00000005307	1 retrocopy	retro_pabe_82,
Pan troglodytes	ENSPTRG00000005809	1 retrocopy	retro_ptro_2303,
Pteropus vampyrus	ENSPVAG00000010393	1 retrocopy	retro_pvam_15,
Ictidomys tridecemlineatus	ENSSTOG00000007840	1 retrocopy	retro_itri_726,
Tupaia belangeri	ENSTBEG00000017239	1 retrocopy	retro_tbel_4583,