RetrogeneDB ID: retro_ogar_1684

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873561.1:94728..95838(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: YES1
• Ensembl ID: ENSOGAG00000003375
• Aliases: None
• Description: v-yes-1 Yamaguchi sarcoma viral oncogene homolog 1 [Source:HGNC Symbol;Acc:12841]

Sequence

>retro_ogar_1684
GGAGAAGCATCTTCCCCATTTTCAGTGGTGCCAAGTTCATATCCTGCTGTTTTAACAGGTGGTGGTACTATATTTGTGGC
CTTATATGATTATGAAGCTGGAACTACAGAAGATCTTTCATTTAAGAAGGATGAAAGATTTCAAATTATTAACAACACGG
AGGGAGACTGGTGGGAAGCAAGATCAACTGCTACAGGAAAGAATGGTTCTATCCCTAGCCCTCATGTAGCGCCTGCAGAT
TCCATTCAGGCAGAAGAATGGTATTTTGGCAAAATGGGAAGAAAAGATGCTGAAAGGTTAATTCTGAAATCCTGGGAACC
AAGGAGGTATTTTCTTAGTAAGAGAGAGTGAAACTACTAAAGGGGCTTATTCCCTTTCCATTCGTGATTGGGATGAGGTA
AGAGGTGACAATGTAAACACTACCAAATTAGGAAACTTGACAATGGCGGATACTGTATCACAACCAGAGCATGGTTTGAA
ACTCTGCAAAAATTAGCGAAACACTATACAGAACATGCTGATGGATTGTGTCACAAGGTAAGGACTGGGTGTCCAAATGT
GAAACCTCAGACTCGAGGTCTAGCAAAGGATGCTTGGGAAATTCCTTGAGAATCTTTATGACTAGAGGTTAAACTAGGAC
AAGGATGTTTTGGTAAAGTATGGATGGAAACATGGAATGGAACAACAAAAGTAGCAAACAAAACCCTAAAGCCAGGTACA
ATGATGCCAGAAGCTTTTCTTCAAGAAGCTCAAATAATGAAAAAATTAAGACATGATAAACTTGTTCCACTGTATGCTGC
TGTTTCTGAAGAGCCAACATACATTGTCATTGAATTTATGTCAAAAGGGAGCTTACTAGATTTCCTTAAAGAAGGAGATG
GAAAGTATTTGAAGCTTCCACAGCTGGTCGATATGGCTACTCAGATTGCTGATGATATGGCATATATTGAAAGAATGAAC
TATATTCACTGAGATCCTCAGGCTGCTAATATTTTTGTAGGAGAAAATCTTGTATGCAAAATAGCAGATTTGGGGTCAGC
AAGATTAATTGAAGACAATGAATACACAGCAAGACAAGGTGTAAAATTTCCAATCAAATGGACAGCTCCT

Alignment

ORF - retro_ogar_1684 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.25 %
• Parental protein coverage: 69.29 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GGASSSFSVVPSSYPAVLTGGVTIFVALYDYEARTTEDLSFKKGERFQIINNTEGDWWEARSIATGKNGY
          G.ASS.FSVVPSSYPAVLTGG.TIFVALYDYEA.TTEDLSFKK.ERFQIINNTEGDWWEARS.ATGKNG.
Retrocopy GEASSPFSVVPSSYPAVLTGGGTIFVALYDYEAGTTEDLSFKKDERFQIINNTEGDWWEARSTATGKNGS

Parental  IPSNYVAPADSIQAEEWYFGKMGRKDAERLLL-NPGNQRGIFLVRESETTKGAYSLSIRDWDELRGDNV-
          IPS..VAPADSIQAEEWYFGKMGRKDAERL.L.NPGNQ.GIFLVRESETTKGAYSLSIRDWDE.RGDNV.
Retrocopy IPSPHVAPADSIQAEEWYFGKMGRKDAERLIL>NPGNQGGIFLVRESETTKGAYSLSIRDWDEVRGDNV<

Parental  KHYKIRKLDNGGYYITTRAQFETLQKLVKHYTEHADGLCHKLTTVCPTVKPQTQGLAKDAWEIPRESLRL
          KHY.IRKLDNGGY.ITTRA.FETLQKL.KHYTEHADGLCHK..T.CP.VKPQT.GLAKDAWEIP.ESL.L
Retrocopy KHYQIRKLDNGGYCITTRAWFETLQKLAKHYTEHADGLCHKVRTGCPNVKPQTRGLAKDAWEIP*ESL*L

Parental  EVKLGQGCFGEVWMGTWNGTTKVAIKTLKPGTMMPEAFLQEAQIMKKLRHDKLVPLYAVVSEEPIYIVTE
          EVKLGQGCFG.VWM.TWNGTTKVA.KTLKPGTMMPEAFLQEAQIMKKLRHDKLVPLYA.VSEEP.YIV.E
Retrocopy EVKLGQGCFGKVWMETWNGTTKVANKTLKPGTMMPEAFLQEAQIMKKLRHDKLVPLYAAVSEEPTYIVIE

Parental  FMSKGSLLDFLKEGDGKYLKLPQLVDMAAQIADGMAYIERMNYIHRDLRAANILVGENLVCKIADFGLAR
          FMSKGSLLDFLKEGDGKYLKLPQLVDMA.QIAD.MAYIERMNYIH.D..AANI.VGENLVCKIAD.G.AR
Retrocopy FMSKGSLLDFLKEGDGKYLKLPQLVDMATQIADDMAYIERMNYIH*DPQAANIFVGENLVCKIADLGSAR

Parental  LIEDNEYTARQGAKFPIKWTAP
          LIEDNEYTARQG.KFPIKWTAP
Retrocopy LIEDNEYTARQGVKFPIKWTAP

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_1684 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000176105	1 retrocopy	retro_hsap_2551,
Monodelphis domestica	ENSMODG00000021477	1 retrocopy	retro_mdom_1121,
Oryctolagus cuniculus	ENSOCUG00000005874	1 retrocopy	retro_ocun_894,
Otolemur garnettii	ENSOGAG00000003375	1 retrocopy	retro_ogar_1684 ,
Pan troglodytes	ENSPTRG00000009824	1 retrocopy	retro_ptro_1487,