RetrogeneDB ID: retro_ogar_2223

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873604.1:1631942..1633014(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000031566
• Aliases: None
• Description: None

Sequence

>retro_ogar_2223
TCTTCCAGCACACAGGCCAGTATTGAGATTGATTCCCTTTATGAAGGAATTGACTTCTATATCTCCATTACCCATGCCCG
ATTTGAAGAATTGAATGCTGATCTGTTCTGTTGCACCCTGGACCCTGTAGAGAAAGCTCTTCGAGATGCCAAACTAGACA
AGTCACAGATTCATGACATTGTCCTGTTTGGTGGTTCTACCTCTATCCCCAAGATTTAAAAGCTTCTCCAAGACTTCTTC
AATGGAAAAGAACTGAATAAGAGCATCAACCCCGATGAGGCTGTTGCTTATGGTGCAGCTGTCCAGGTGGCCCAACTATC
TGGTGACAGATCCAAGAATGTTCAAGATTTGCTACTATTGGATGTCACTCCTCTTTCTCTGGGTATTGAGGCTTCTGGTG
GAGTTATGCTCATTAAGCCCAACACTACTATTTCTACCAAGCAAACACAGACCTTTGCTACCTACTCTGACAACCAGACC
AGCTGGGTGTGATCCAGGTTTATGAAGGTGAGCATGCCATGACCAAGGATAACAACTTGCTTGGCAAGTGTGAACTTACA
GACAGACCTCCTGCTCCCCATGATGTTCCTCAGATTGAAGTCACTTTGTATGAAGTCATTGATGCCAATGGCATTCTCAA
TGTTTCTGCTGTGGATAAGAGCATAGGAAAAGAAAATAAGATTACCATCACTAACGACAAGGGACGTTTGAGCAAGGAAG
ACATTGAACGTATGGTCCAGGAAGCCGAGAAGTACAAGGCTGAAAACGAGAAGCAGAGGGACAAGGTTTCATCAAAGAAC
TCACTTGAGTCCTATGCATTCAACATGAAACAACTGTTGAAAATGAGAAACTTCAAGGCAAGATCAACGATGAGGACAAA
CAGAAGAGTCTTGACAAGTGTAATGAAATTATCAACTGGCTTGATAAGAATCAGACTGCGGAGAAGGAAGAATATGAATA
TCAGCAGAAGGAGCTGGAGAAAGTCTGCAACCCCATCATTACCAAGTTGTAACAGAGTGCAGGAAGAATGCCAGGAGGAT
TCCCTGGTGGTGGTGCTCCTCCTTCTGGTGGT

Alignment

ORF - retro_ogar_2223 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.14 %
• Parental protein coverage: 95.48 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SSSTQASIEIDSLYEGIDFYTSITRARFEELNADLFRGTLDPVEKALRDAKLDKSQIHDIVLVGGSTRIP
          SSSTQASIEIDSLYEGIDFY.SIT.ARFEELNADLF..TLDPVEKALRDAKLDKSQIHDIVL.GGST.IP
Retrocopy SSSTQASIEIDSLYEGIDFYISITHARFEELNADLFCCTLDPVEKALRDAKLDKSQIHDIVLFGGSTSIP

Parental  KIQKLLQDFFNGKELNKSINPDEAVAYGAAVQAAILSGDKSENVQDLLLLDVTPLSLGIETAGGVMTVLI
          KI.KLLQDFFNGKELNKSINPDEAVAYGAAVQ.A.LSGD.S.NVQDLLLLDVTPLSLGIE.A.G......
Retrocopy KI*KLLQDFFNGKELNKSINPDEAVAYGAAVQVAQLSGDRSKNVQDLLLLDVTPLSLGIE-ASGGVMLIK

Parental  KRNTT-IPTKQTQTFTTYSD-NQPGVLIQVYEGERAMTKDNNLLGKFELTGIPPAPRGVPQIEVTFD--I
          ...T...P.K......T.....Q.GV.IQVYEGE.AMTKDNNLLGK.ELT..PPAP..VPQIEVT....I
Retrocopy PNTTI>LPSKHRPLLPTLTT>DQLGV-IQVYEGEHAMTKDNNLLGKCELTDRPPAPHDVPQIEVTLYEVI

Parental  DANGILNVSAVDKSTGKENKITITNDKGRLSKEDIERMVQEAEKYKAEDEKQRDKVSSKNSLESYAFNMK
          DANGILNVSAVDKS.GKENKITITNDKGRLSKEDIERMVQEAEKYKAE.EKQRDKVSSKNSLESYAFNMK
Retrocopy DANGILNVSAVDKSIGKENKITITNDKGRLSKEDIERMVQEAEKYKAENEKQRDKVSSKNSLESYAFNMK

Parental  -ATVEDEKLQGKINDEDKQKILDKCNEIINWLDKNQTAEKEEFEHQQKELEKVCNPIITKLYQSAGGMPG
          ..TVE.EKLQGKINDEDKQK.LDKCNEIINWLDKNQTAEKEE.E.QQKELEKVCNPIITKL.QSAG.MPG
Retrocopy <TTVENEKLQGKINDEDKQKSLDKCNEIINWLDKNQTAEKEEYEYQQKELEKVCNPIITKL*QSAGRMPG

Parental  GMPGGMPGGFPGGG
          G.PGG..G..P.GG
Retrocopy GFPGG--GAPPSGG

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_2223 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000031566	8 retrocopies	retro_ogar_1036, retro_ogar_202, retro_ogar_2137, retro_ogar_2223 , retro_ogar_2693, retro_ogar_3024, retro_ogar_3242, retro_ogar_458,
Rattus norvegicus	ENSRNOG00000034066	1 retrocopy	retro_rnor_1221,