RetrogeneDB ID: retro_ogar_769

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873527.1:34749009..34750212(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000032283
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ATF2
• Ensembl ID: ENSOGAG00000011373
• Aliases: None
• Description: activating transcription factor 2 [Source:HGNC Symbol;Acc:784]

Sequence

>retro_ogar_769
ATGAAATCCAAGTTGCATGTGAATTCTGCCAGACAATACAAGGACCTGTGGAATATGAGTGATGACAAACCCTTTCTATG
TACTGCGCCTGGATGTGGCCAGTGTTTTACCAATGAGGATCATTTGGCTGTCCATAAACATAAACCTGAGATGACACTGA
AATTTGATCCAGCACGTCATGACAGTGTCATCGTGGCTGATCAGACCCAACACCAACAAGATTCTTGAAAAACTATGAAG
AAGTGGGTTTGTTTAATAGTTGGCAAGTCCATTTGAGAATGAACTCAAGAAAGCTTCAGATGACATTAAAAAAATGCCTC
TAGATTTATCCCCTCTTGCAACACCCATCATAGGAAGCAAAATTGAGGAGCCATCTGTTGCAGAAACAACTCACCAGGAT
AGTCCTTTACCTCACCCAGAGTCCACTACCAGTGATGAAAAGGAAGTACCATTGGCACAGACCGCACAGCCCACATCAGC
TATCGTCTGTCCAGCATCATTACAGGATCCTAAGGTGCTCCTTACAAGTTCTGATTCAAGTGTAATTATTCAACAAGCGG
TACCTTCACCAACTTCAAGTACTGTAATCACCCAAGCACCGTCCTCTAACAGGCCAACTGCCCCTGTACCAGGCCCATTT
TCTCTTCTGTTACATCTCCCTAATGGACAAACCATGCCTGTTGCTATTCCTGCATCAATTACAAGTTCTAATGTGCATGT
TCCAGCTGTAGTCTCATGTGTTCAACCAGTCACCATGGTGCCTCATGTTTTAGGAATCCCAGGTCCTTCCTCCCCTCAAC
CGGTACAGTCAGAAGCAAAAATGAGATTAAAATCTGCTCTGACCCAACAACATCCTCCAGTTACTAATGGTGATACTGTC
AAAGGTCATGGTAGTGGATTGATTAGGACTCAGTCAGAGGCATCTCGACCACAGTCATGTCAACAGGCACCACATTAGCT
ACAGAAACTCCAGCTTCTCCAGCTCACACAACTCCGCAGACCCAAAATACAAATGGTCATGGAAGAAGAGCAGCTAATGA
AGATCCCGATGAAAAAAGGAGAAAGTTTTTAGAACAAAATAGAGCAGCAGCTTCAAGACGCTGACAAAAACGGAAAGTCT
AGGTTTTGTCTTTAGAGAAGAAAGCAGAAGACTTGAGTTCATTAAATGGTCAACTGCAGAGAAATGAAGTGGCACAGCTG
AAA

Alignment

ORF - retro_ogar_769 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.93 %
• Parental protein coverage: 79.6 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MKFKLHVNSARQYKDLWNMSDDKPFLCTAPGCGQRFTNEDHLAVHKHKHEMTLKFGPARNDSVIVADQT-
          MK.KLHVNSARQYKDLWNMSDDKPFLCTAPGCGQ.FTNEDHLAVHKHK.EMTLKF.PAR.DSVIVADQT.
Retrocopy MKSKLHVNSARQYKDLWNMSDDKPFLCTAPGCGQCFTNEDHLAVHKHKPEMTLKFDPARHDSVIVADQT<

Parental  PTPTRFLKNCEEVGLFNE-LASPFENEFKKASEDDIKKMPLDLSPLATPIIRSKIEEPSIVETTHQDSPL
          PTPTRFLKN.EEVGLFN..LASPFENE.KKAS.DDIKKMPLDLSPLATPII.SKIEEPS..ETTHQDSPL
Retrocopy PTPTRFLKNYEEVGLFNS<LASPFENELKKAS-DDIKKMPLDLSPLATPIIGSKIEEPSVAETTHQDSPL

Parental  PHPESTTSDEKEVPLAQTAQPTSAIVRPASLQVPNVLLTSSDSSVIIQQAVPSPTSSTVITQAPSSNRPI
          PHPESTTSDEKEVPLAQTAQPTSAIV.PASLQ.P.VLLTSSDSSVIIQQAVPSPTSSTVITQAPSSNRP.
Retrocopy PHPESTTSDEKEVPLAQTAQPTSAIVCPASLQDPKVLLTSSDSSVIIQQAVPSPTSSTVITQAPSSNRPT

Parental  VPVPGPFPLLLHLPNGQTMPVAIPASITSSNVHVPAAVPLVRPVTMVPSVPGIPGPSSPQPVQSEAKMRL
          .PVPGPF.LLLHLPNGQTMPVAIPASITSSNVHVPA.V..V.PVTMVP.V.GIPGPSSPQPVQSEAKMRL
Retrocopy APVPGPFSLLLHLPNGQTMPVAIPASITSSNVHVPAVVSCVQPVTMVPHVLGIPGPSSPQPVQSEAKMRL

Parental  KAALTQQHPPVTNGDTVKGHSSGLVRTQSEESRPQSSQQP-ATSTTETPASPAHTTPQTQNTSGRRRRAA
          K.ALTQQHPPVTNGDTVKGH.SGL.RTQSE.SRPQS.QQ...T..TETPASPAHTTPQTQNT.G..RRAA
Retrocopy KSALTQQHPPVTNGDTVKGHGSGLIRTQSEASRPQSCQQA<TTLATETPASPAHTTPQTQNTNGHGRRAA

Parental  NEDPDEKRRKFLERNRAAASRCRQKRKVWVQSLEKKAEDLSSLNGQLQ-SEVTLLR
          NEDPDEKRRKFLE.NRAAASR..QKRKV.V.SLEKKAEDLSSLNGQLQ..EV..L.
Retrocopy NEDPDEKRRKFLEQNRAAASRR*QKRKV*VLSLEKKAEDLSSLNGQLQRNEVAQLK

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_769 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000008085	1 retrocopy	retro_cjac_789,
Otolemur garnettii	ENSOGAG00000011373	1 retrocopy	retro_ogar_769 ,