RetrogeneDB ID: retro_ogar_1854

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873570.1:4581547..4584485(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000025137
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: EIF4ENIF1
• Ensembl ID: ENSOGAG00000012272
• Aliases: None
• Description: eukaryotic translation initiation factor 4E nuclear import factor 1 [Source:HGNC Symbol;Acc:16687]

Sequence

>retro_ogar_1854
ATGGGTAGGAGAAGCGTGGGGGAAACAGAAAATGGAGATGCTTTTCTTGACCTGAAGAGGCTGCCGGCTTCCAAATGCCC
CCATCGCTATCCAAAAGAGGAACTTTTGGATAAAAGAACGCCCCCATTCCAAACAGAGGCCTTCATGCCTTTCCGAAAAA
TATGACAGTGATGGTGTCTGGGACCCTGAGAGGTGGCATGCCTCTCTCTACCTAGCATCAGGACGGAGTTCACCAGTAGA
AAATCTGAAGAAAGAGCCGGATTCAGACCGGCCTTCTCTGGTGCGCAGGATAGTAGATCCACGCGAGCGGGTGAAAGAAG
ACGACTTAGATGTGGTTCTCAGCCCACAGAGACGCAGCTTTGGAGGGGGCTGCCACGTGGCAGCTGCTGTGAGCTCCTGG
CGCTCTTTAGAGAAAGATGGCGATGGGCTTCGTTTGCTGGGTGGACGTAGGATTGGCAGTGGGAGGATAATCTCTGCCCG
GACCTTTGAGAAGGATCACCGTCTTAGTGATAAGGACCTCCGGGACTTGAGAGACAGAGACCGTGAGAGGGACTACAAGG
ACAAGCGTTTCAGGACAGAGTTTGGGGATAGTAAGTGTGTCTTTGGTGAGCGGAGAAGAAATGATTCTTATACAGAAGAA
GAACCGGAGTGGTTCTCAGCTGGACCCACAAGTCAATCTGAAACCATTGAACTGACTGGCTTTGATGATAAGATATTAGA
AGAAGATCACAAAGGAAGAAAAAGAACACGGCGACGAACAGCCTCTGTGAAGGAAGGAATAGTCGAGTGCAATGGAGGAG
TGGCCGAAGAGGATGAGGTGGAGGTCATCCTTGCACAGGAACCTGCTGCTGATCAGGAAGTGCCAAGGCATGCTGTCTTA
CCTGAGCAGTCTCCAGGAGAATTTGATTTTAATGAGTTCTTTAACCTTGATAAGGTTCCATGCTTGGCTTCGATGATAGA
AGATGTTTTGGGAGAAGGGTCAGTCTCTGCCAGTCGTTTCAGCAGGTGGTTCTCTAATCCAAGGGAAGCCGAGCCAGCAG
TCTTGGGTCAATACCCCATGAAGAACTGGAGAGACTCCCAGGTCTGGAGCAAGCCATCCTCTCTCCTGGACAGAACTCGG
GGAATTATTTTGCTCCTATACCATTGGAAGACCACTCTGAAAATAAAGTGGATATTTTAGAAATGCTTCAGAAAGCCAAA
GTGGATTTAAAACCTCTTCTTTCCAACCTTTCTGCAAATAAAGAAAAACTTAAAGAGAGCTCACATTCAGGGGTTGTACT
GTCAGTGGAAGAGGTAGAAGCAGGACACAAGGGTTTGAAGGTGGATCAGCAAGTGAAAAATTCAACTCCCTTCATGGCAG
AACATCTAGAAGAGACCCTGTGTGCTGTAACCAGCAATCGACAACTCAAGAAGGATGGAGACATGACAGCTTTCAACAAG
CTAGTGAGCACCATGAAGGCAAGTGGGACTTTGCCTCCTCAGCCCAAAGTCGGCCGAAATCTTGAAAGCCATTTGATGTC
CCCCGCTGAGATTCCAGGGCAGCCTGTCCCTAAGAACATCCTACAGGAACTTCTGGGCCAACCAGTTCAGAGACCTACTT
CTTCTAATCTTCTGAGTGGCCTTATGGGGAGCTTGGCGCCTACAACATCTTTACTGGGCCAAAGAGCACCCTCTCTTCCC
TTGTCACAGGTGTTTCAAACTCGAGCAGCCTCAGCAGACTACCTTCGCCCAAGAATACCATCACCAATTGCACGTTTTAC
ACCAGGACCACAGCAGCTACTTGGAGACCCATTCCAAGGCATGCGCAAGCCCATGAGCCCTGTCACAGCCCAGATGAGCC
AGCTAGAGTTACAACAGGCAGCTTTGAAAGGGCTGGCCTTGCCCCATGACCTTGCCGTACAGGCCACAAACTTCTACCAG
CCTGGTTTTGGCAAACCACAGATGGACAGAACCAGAGATGGATTCAGAAACAGGCAACAGCGAGTGACCAAGTCACCAGC
ACCTGTGCACCGAGGGAATTCCTCTTCCCCTGCCCCCGCTGCCTCCATCACAAGCATGCTTTCTCCTTTTACCCCTACCT
CAGTGATTCCTAAGATGTACGAGAGCAAAGAGAAAAAGCAAGGAGGAGCCAGTATCTGGAAAAGCAGCTCTTGGTGATAG
TAAAGGGGATACTCAAAAGGCCAGTGAAGAAAAACTCCTGTCATCCAATTCTGTACCCAGTGTTGATCGAGACACTTCTC
CCACTACAAATCCCAAATTGTCAACGTTACAGCGGTCTTTATGTTCCACCCCCTTGTCCCAGACCAATCGTTACACCAAA
GAACAAGATTACCGACCTAAAGCAACTGGGAGAAAAACACCCACCCTGGCGTCCCCAGTTCCAGGAACACCTTTTCTCCA
CCCTGTCCACCAAGTTCCCCTTGTCCCCCATGTCCCTATTGTTCGGCCTGCTCACCAGCTTCACCCCGGGGTGGTGCAAA
GGATGCTGGCCCAGGGAATACATCCACAGCATCTTTCAAGTTTGCTTCAAGCTGGTGTGCTTCCTCCTGGGATGGACCTG
ACCCATTTACAGGGACTATCTGGCCCAATCCTGGGTCAGCCCTTTTACCCTTTACCTGCTGCTAGTCACCCTCTCTTAAA
CCCTCGACCTGGGACTCCACTGCGTCTGGCAATGATGCAGCAGCAGCTACCGCGCTCAGTTCGGCGTCCTCCAGGCTCTG
GTTCCCAGGCAGCAGCTGTCAGTGTTCAGATGCTGCCTCAGAATGTGCCCAGCCGCTCAGGCCTGCCTCACGTGCACTCC
CAGCTAGAGCATCGCCCCAGTCAAAGGAGCAGCTCCCCTGTGGGCCTCGCCAAATGGTTTGGCTCAGATGTGCTACAGCA
GCCCCTGCCATCCATGCCTGCCAAAGTCATCAGTGTGGATGAATTGGAATACCGACAG

Alignment

ORF - retro_ogar_1854 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.83 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MDRRSVGETENGDAFLDLKRLPASKCPHRYTKEELLDIKERP-HSKQRPSCLSEKYDSDGVWDPEKWHAS
          M.RRSVGETENGDAFLDLKRLPASKCPHRY.KEELLD.K..P.HSKQRPSCLSEKYDSDGVWDPE.WHAS
Retrocopy MGRRSVGETENGDAFLDLKRLPASKCPHRYPKEELLD-KRTP>HSKQRPSCLSEKYDSDGVWDPERWHAS

Parental  LYPASGRSSPVENLKKELDSDRPSLVRRIVDPRERVKEDDLDVVLSPQRRSFGGGCHVTAAVSSRRSGSP
          LY.ASGRSSPVENLKKE.DSDRPSLVRRIVDPRERVKEDDLDVVLSPQRRSFGGGCHV.AAVSS.RS...
Retrocopy LYLASGRSSPVENLKKEPDSDRPSLVRRIVDPRERVKEDDLDVVLSPQRRSFGGGCHVAAAVSSWRS---

Parental  LEKDGDGLRLLGGRRIGSGRIISARTFEKDHRLSDKDLRDLRDRDRERDYKDKRFRREFGDSKRVFGERR
          LEKDGDGLRLLGGRRIGSGRIISARTFEKDHRLSDKDLRDLRDRDRERDYKDKRFR.EFGDSK.VFGERR
Retrocopy LEKDGDGLRLLGGRRIGSGRIISARTFEKDHRLSDKDLRDLRDRDRERDYKDKRFRTEFGDSKCVFGERR

Parental  RNDSYTEEEPEWFSAGPTSQSETIELTGFDDKILEEDHKGRKRARRRTASVKEGIVECNGGVAEEEEVEV
          RNDSYTEEEPEWFSAGPTSQSETIELTGFDDKILEEDHKGRKR.RRRTASVKEGIVECNGGVAEE.EVEV
Retrocopy RNDSYTEEEPEWFSAGPTSQSETIELTGFDDKILEEDHKGRKRTRRRTASVKEGIVECNGGVAEEDEVEV

Parental  ILAQEPAADQEVPRDAALPEQSPGEFDFNEFFNLDKVPCLASMIEDVLGEGSVSASRFSRWFSNPSRSGS
          ILAQEPAADQEVPR.A.LPEQSPGEFDFNEFFNLDKVPCLASMIEDVLGEGSVSASRFSRWFSNP.....
Retrocopy ILAQEPAADQEVPRHAVLPEQSPGEFDFNEFFNLDKVPCLASMIEDVLGEGSVSASRFSRWFSNPRE--A

Parental  RSSSLGSTP-HEELERLAGLEQAILSPGQNSGNYFAPIPLEDHSENKVDILEMLQKAKVDLKPLLSSLSA
          ....LG..P.HEELERL.GLEQAILSPGQNSGNYFAPIPLEDHSENKVDILEMLQKAKVDLKPLLS.LSA
Retrocopy EPAVLGQYP<HEELERLPGLEQAILSPGQNSGNYFAPIPLEDHSENKVDILEMLQKAKVDLKPLLSNLSA

Parental  NKEKLKESSHSGVVLSVEEVEAGLKGLKVDQQVKNSTPFMAEHLEETLSAVTSNRQLKKDGDMTAFNKLV
          NKEKLKESSHSGVVLSVEEVEAG.KGLKVDQQVKNSTPFMAEHLEETL.AVTSNRQLKKDGDMTAFNKLV
Retrocopy NKEKLKESSHSGVVLSVEEVEAGHKGLKVDQQVKNSTPFMAEHLEETLCAVTSNRQLKKDGDMTAFNKLV

Parental  STMKASGTLPSQPKVSRNLESHLMSPAEIPGQPVPKNILQELLGQPVQRPTSSNLLSGLMGSLEPTTSLL
          STMKASGTLP.QPKV.RNLESHLMSPAEIPGQPVPKNILQELLGQPVQRPTSSNLLSGLMGSL.PTTSLL
Retrocopy STMKASGTLPPQPKVGRNLESHLMSPAEIPGQPVPKNILQELLGQPVQRPTSSNLLSGLMGSLAPTTSLL

Parental  GQRAPSPPLSQVFQTRAASADYLRPRIPSPIG-FTPGPQQLLGDPFQGMRKPMSPVTAQMSQLELQQAAL
          GQRAPS.PLSQVFQTRAASADYLRPRIPSPI..FTPGPQQLLGDPFQGMRKPMSPVTAQMSQLELQQAAL
Retrocopy GQRAPSLPLSQVFQTRAASADYLRPRIPSPIARFTPGPQQLLGDPFQGMRKPMSPVTAQMSQLELQQAAL

Parental  EGLALPHDLAVQATNFYQPGFGKPQMDRTRDGFRNRQQRVTKSPAPVHRGNSSSPAPAASITSMLSPSFT
          .GLALPHDLAVQATNFYQPGFGKPQMDRTRDGFRNRQQRVTKSPAPVHRGNSSSPAPAASITSMLSP.FT
Retrocopy KGLALPHDLAVQATNFYQPGFGKPQMDRTRDGFRNRQQRVTKSPAPVHRGNSSSPAPAASITSMLSP-FT

Parental  PTSVIRKMYESKE-KSKEEPVSGKAALGDSKEDTQKASEEKLLSSNSVPSVDRDASPTTNPKLSTLQRSS
          PTSVI.KMYESKE.KSKEEPVSGKAALGDSK.DTQKASEEKLLSSNSVPSVDRD.SPTTNPKLSTLQRS.
Retrocopy PTSVIPKMYESKE>KSKEEPVSGKAALGDSKGDTQKASEEKLLSSNSVPSVDRDTSPTTNPKLSTLQRSL

Parental  CSTPLSQTNRYTKEQDYRPKATGRKTPTLVSPVQGTPFLRPVHQVPLVPHVPIVRPAHQLHPGLVQRMLA
          CSTPLSQTNRYTKEQDYRPKATGRKTPTL.SPV.GTPFL.PVHQVPLVPHVPIVRPAHQLHPG.VQRMLA
Retrocopy CSTPLSQTNRYTKEQDYRPKATGRKTPTLASPVPGTPFLHPVHQVPLVPHVPIVRPAHQLHPGVVQRMLA

Parental  QGIHPQHLSSLLQAGVLPPGMDLTHLQGISGPILGQPFYPLPAASHPLLNPRPGTPLHLAMMQQQLQRSV
          QGIHPQHLSSLLQAGVLPPGMDLTHLQG.SGPILGQPFYPLPAASHPLLNPRPGTPL.LAMMQQQL.RSV
Retrocopy QGIHPQHLSSLLQAGVLPPGMDLTHLQGLSGPILGQPFYPLPAASHPLLNPRPGTPLRLAMMQQQLPRSV

Parental  LHPPGSGSQAAAVSVQTPPQNVPSRSGLPHMHSQLEHRPSQRSSSPVGLAKWFGSDVLQQPLPSMPAKVI
          ..PPGSGSQAAAVSVQ..PQNVPSRSGLPH.HSQLEHRPSQRSSSPVGLAKWFGSDVLQQPLPSMPAKVI
Retrocopy RRPPGSGSQAAAVSVQMLPQNVPSRSGLPHVHSQLEHRPSQRSSSPVGLAKWFGSDVLQQPLPSMPAKVI

Parental  SVDELEYRQ
          SVDELEYRQ
Retrocopy SVDELEYRQ

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_1854 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
Microcebus murinus	ENSMICG00000005470	1 retrocopy	retro_mmur_1508,
Otolemur garnettii	ENSOGAG00000012272	1 retrocopy	retro_ogar_1854 ,