RetrogeneDB ID: retro_ogar_1523

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873550.1:17775597..17776365(+)
• Located in intron of: ENSOGAG00000002047

Retrocopy information

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

Parental gene information

• Parental gene symbol: FRG1
• Ensembl ID: ENSOGAG00000005749
• Aliases: None
• Description: FSHD region gene 1 [Source:HGNC Symbol;Acc:3954]

Sequence

>retro_ogar_1523
ATGGCAGGATATTTCTCCATGAAGTCTACCAAGCTCATGCTCAAGGGGACGAAGGCAAAGAGTAAGAAAAAAAAAAAGCA
AAAATAGGAAGAGAACTAGAGAAGAGGATGAAAATACCCAACTTGATATTGGAATCTGGTGGACAGTAACAAACTTAGTG
AAATTTCAGGAACCATAGCCATTGAAATGGATAAAGGAACCTACATACATGTACTTGACAATGGTCTTTTCACACTGGGG
GCCCCACATAAAGAAGTCGATGAGGGCCCCAGTCCTCCAGAACAGTGTGCAGCTGTCAAATTGTCTGATTCCAGAATTGC
CCTGAAATCTGGCTATGGAAAATATCTTGGTATAAATTCAGATGGACTTCTTGTTGGGTGGTCAGATGCAATTGGACCAA
GTGGACAGTGGTAACCAGTCTTTCAAGATGGAAAAATAGCTTTGTTGGCTTCAAATAGCTGCTTTATTAGATGCAATGAA
GCAGGTGACATAGAAGCAAAAAGTAAAACAGCAGGAGAAGAAGTGATAAAGATTCGATCCTGTGCTGAAAGGGAAACCAA
GAAAAAAGACAACGTCCCAGAAGATGACAAAGGGAACGTAAAGCAGCGTGAAATCAGTTACGTAAAGAAATTTCAGAGCT
TCCAAGACCACAAACTTACAATAAATAAAGAAGATAGTAAAAATTTTAAAAAGGCTCAGAAAGAAGGATTTTTGCATGAG
ACCTTTCTAGACAGGAGAACCAAATTGAAAGCCAACAGATACTGCAAA

Alignment

ORF - retro_ogar_1523 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.15 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAEYSYVKSTKLVLK-GTKAKSKKKKSKDRTRTREEDEKTQLDIVGIWWTVTNF-GEISGTIAIEMDKGT
          MA.Y...KSTKL.LK.G............R.RTREEDE.TQLDI.GIWWTVTN...EISGTIAIEMDKGT
Retrocopy MAGYFSMKSTKLMLK>GRRQRVXXXXXXXRKRTREEDENTQLDI-GIWWTVTNL<SEISGTIAIEMDKGT

Parental  YIHALDNGLFTLGAPHKEVDEGPSPPEQFTAVKLSDSRIALKSGYGKYLGINSDGLVVGRSDAIGPREQW
          YIH.LDNGLFTLGAPHKEVDEGPSPPEQ..AVKLSDSRIALKSGYGKYLGINSDGL.VG.SDAIGP..QW
Retrocopy YIHVLDNGLFTLGAPHKEVDEGPSPPEQCAAVKLSDSRIALKSGYGKYLGINSDGLLVGWSDAIGPSGQW

Parental  EPVFQDGKMALLASNSCFIRCNEAGDIEAKSKTAGEEEMIKIRSCAERETKKKDDIPEEDKGNVKQCEIN
          .PVFQDGK.ALLASNSCFIRCNEAGDIEAKSKTAGEE..IKIRSCAERETKKKD..PE.DKGNVKQ.EI.
Retrocopy *PVFQDGKIALLASNSCFIRCNEAGDIEAKSKTAGEE-VIKIRSCAERETKKKDNVPEDDKGNVKQREIS

Parental  YVKKFQSFQDHKLKISKEDSKILKKARKDGFLHETLLDRRAKLKADRYCK
          YVKKFQSFQDHKL.I.KEDSK..KKA.K.GFLHET.LDRR.KLKA.RYCK
Retrocopy YVKKFQSFQDHKLTINKEDSKNFKKAQKEGFLHETFLDRRTKLKANRYCK

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_1523 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 7 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000022277	7 retrocopies	retro_cpor_1349, retro_cpor_1350, retro_cpor_1359, retro_cpor_1361, retro_cpor_1362, retro_cpor_1363, retro_cpor_864,
Felis catus	ENSFCAG00000025737	1 retrocopy	retro_fcat_464,
Otolemur garnettii	ENSOGAG00000005749	2 retrocopies	retro_ogar_1523 , retro_ogar_2535,
Pan troglodytes	ENSPTRG00000016671	1 retrocopy	retro_ptro_2930,
Rattus norvegicus	ENSRNOG00000009846	1 retrocopy	retro_rnor_88,
Tupaia belangeri	ENSTBEG00000014491	2 retrocopies	retro_tbel_1202, retro_tbel_3435,
Tarsius syrichta	ENSTSYG00000010985	2 retrocopies	retro_tsyr_1347, retro_tsyr_1778,