RetrogeneDB ID: retro_ogar_3196

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873739.1:1646096..1646988(+)
• Located in intron of: ENSOGAG00000030513

Retrocopy information

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

Parental gene information

• Parental gene symbol: MKRN2
• Ensembl ID: ENSOGAG00000003255
• Aliases: None
• Description: makorin ring finger protein 2 [Source:HGNC Symbol;Acc:7113]

Sequence

>retro_ogar_3196
AGGTATTTTATGCATATGTATGTCGGGAAGGAAGCCAGTGCCTGTTCTGACATGACTGGGCAAACAGCGAGTTATCCACC
ATCTGTAAATACTATCAGAAGGGGTACTGTGCCTACTGAACTCAGCACAGACACGATCACACGAGGCTTCTGCTGCATCT
GGTGGTGCCGTGAGCACCGTGCCCCACAGTGTGCCCTCCTCAGGTTTCCACAGCCCTCATCCTTCTTCCAGCCTCACTGC
ATCTGTTGTGAAAACTAATTCACTCAAACCTGGGAAGCGTGAAAAGAGAATGTTGGTGCTTAGAGACTGAAATCTCTCTG
GCATGGCTGAAGAAAAGACACACTCGAGTCTGGTGAGTAATCCAGGCAGCTACCGTGACCCCCAGCCCAGCCCTGAGATG
AAGCTGCATTCCTACCTGGATGCCACCAGGAGTGGCCTTGATGGCTTGGAAGCCAGCAGCTCCTACAGCAGCAAGCAGCA
GCTGTGCCCATATGCAGCCACCAGGGAGCGCCAGTTTGGGGATTCCTGTGTCTACCTGCACGGTGAAGTGTGTGACATCT
GTAACCTGGGAGCCCTGCATCCCTTCGACCCAGAGCAGAGGCAAGCTCATGAGAAGGTCTGCATGTCCATGTTTGAACTC
GAAATGGAAAAGGCCTTTGCCTTCTAGGCAAGTCAGGACAAAGTGTGCAGTATCTGCATGAAGTGATCCTGGAGAAGGCC
TCTGCCTCCGAGAGGAGGTTTGGGATCCTCTCCAGCTTCAATCACATGTGCTGCTTGTCCTGCATCCAGTAGTGGTGCTA
TGCCAAGAAGTTTGAAAACATGATCATTGAGTCTCATCCGGAAGGCCATGTGATATCAGAGTTTATGATTCCAAGTGTAA
TATTGGGTGGAA

Alignment

ORF - retro_ogar_3196 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.45 %
• Parental protein coverage: 70.95 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  RYFMHG-VCREGSQCLFSHDLANSKPSTICKYYQKGYCAYGTRCRYDHTR-PSAASGGAVGTMPHSVPSS
          RYFMH..VCREGSQCLF.HD.ANS..STICKYYQKGYCAY.T..R.DHTR..SAASGGAV.T.PHSVPSS
Retrocopy RYFMHM<VCREGSQCLF*HDWANSELSTICKYYQKGYCAY*TQHRHDHTR<ASAASGGAVSTVPHSVPSS

Parental  GFHGPQPSSDLTASVVKTNSLEPGKREKRTLVLRDRNLSGMAEEKTHLSLVSNPGSCSDPQPSPEMKPHS
          GFH.P.PSS.LTASVVKTNSL.PGKREKR.LVLRD.NLSGMAEEKTH.SLVSNPGS..DPQPSPEMK.HS
Retrocopy GFHSPHPSSSLTASVVKTNSLKPGKREKRMLVLRD*NLSGMAEEKTHSSLVSNPGSYRDPQPSPEMKLHS

Parental  YLDAIRSGLDGLEASSSYSSEQQLCPYAAAGECRFGDSCVYLHGEVCDICRLRVLHPFDPEQRKAHEKVC
          YLDA.RSGLDGLEASSSYSS.QQLCPYAA..E..FGDSCVYLHGEVCDIC.L..LHPFDPEQR.AHEKVC
Retrocopy YLDATRSGLDGLEASSSYSSKQQLCPYAATRERQFGDSCVYLHGEVCDICNLGALHPFDPEQRQAHEKVC

Parental  MSTFELEMEKAFALQASQDKVCSICM-EVILEKASASERRFGILSNCNHTYCLSCIRQWRCAKQFENMII
          MS.FELEMEKAFA..ASQDKVCSICM.EVILEKASASERRFGILS..NH..CLSCI..W..AK.FENMII
Retrocopy MSMFELEMEKAFAF*ASQDKVCSICM<EVILEKASASERRFGILSSFNHMCCLSCIQ*WCYAKKFENMII

Parental  KSCPECRVISEFVIPSV-YWVE
          .S.PE..VISEF.IPSV.YWVE
Retrocopy ESHPEGHVISEFMIPSV>YWVE

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_3196 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016733	1 retrocopy	retro_cjac_2362,
Mus musculus	ENSMUSG00000000439	2 retrocopies	retro_mmus_3578, retro_mmus_544,
Otolemur garnettii	ENSOGAG00000003255	1 retrocopy	retro_ogar_3196 ,
Otolemur garnettii	ENSOGAG00000009877	2 retrocopies	retro_ogar_3468, retro_ogar_424,
Pteropus vampyrus	ENSPVAG00000005822	1 retrocopy	retro_pvam_1177,