RetrogeneDB ID: retro_ogar_1395

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873545.1:13179266..13180291(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000008331
• Aliases: None
• Description: None

Sequence

>retro_ogar_1395
CTTTTGTCCAGGCTAAAACAGCTACAAGTAAAATTGCATAATCCTCCCACCGTCCATTATCCCTCCAGTCAAGGACAAAT
GGACATAAGTGTCACGATTGGCAGCCAAGATGGTCTTTGTAAGGTCTTTGAAATTCCTTCACCCTGGAGATAATACTCTC
CTAAATGAACCTACTTACGGAAGAACACTTCAAGCTCTGAAACCACTGGGCTGCAACATCATCAGTGTCGCCAGTGATGA
GCATGGGATGGTCCCAGACTCCCTCAGAGAAATACTTTCCAAGTGGAAACCAGAAGATTCAAAGAACCCCAAGAAAAACA
CCCCCAAATTTCTCTATACTACCCCAAATGGCACCATCCTACTGGAAACTCATTAACAAGTGGCCGCAAAAAGGAAACCT
ATGAGCTTGCAAGAATATATGATCTCCTCATAATAGAAGATGATCCTTACTATTTTCTTCAGTTTAACAAGTCCTGGGCA
CCAACATTTCTGTCCATGGATGTCAATGGGTGTGTCATCAGAGTTGATGCTTTTTCGAAAGTCCTCTCCTCTGGGTTGAG
AGTCGGGTTTTTCACTGGTCCAAGACCCTTGATACAGAGAGTTGTTCTTCACACAGAAGTGTCAGCGTTACACCCCAGCA
CTTTTAACCAGCTTATGGTATCCCAGCTTCTACCCCAGTAGGGACAAGAGGGCTTCCTGGCTCATGTGCACAGGGTTACT
GGTTTCTACAGGAGCCAGAGAGATGCAGTGTTGGCAGCTGCAGACAGGTGGCTCAGGGGTTTGGCAGAATGGCACGTTCC
TACCGCCGGGATGTTTTTGTGGATTAAAATTAAAGGCATTTCTGATGTAAGAGAACTGATTGAAGAAAAGCCATCAAGAA
AGAGATATTACTGCTTCCTGGAAAGGGTTTCTACAACAATAGCTCAGCTCCCAGCCCTTATGTGAGAGTATCCTTCTCTT
CAGCCTCTCCAGAACAGATGGATATGGCCTTCAAGATATTAGCCCAACTTATTAAAGAATCTTTA

Alignment

ORF - retro_ogar_1395 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.94 %
• Parental protein coverage: 80.8 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LLSWLKQLQVKLHNPPTVHYPPSQGQMDICVTIGSQDGLCKVFEMIVNP-GDNILLNEPTYGGTLQVLKP
          LLS.LKQLQVKLHNPPTVHYP.SQGQMDI.VTIGSQDGLCKVFE.I..P.GDN.LLNEPTYG.TLQ.LKP
Retrocopy LLSRLKQLQVKLHNPPTVHYPSSQGQMDISVTIGSQDGLCKVFE-IPSP>GDNTLLNEPTYGRTLQALKP

Parental  LGCNIISVASDEHGMVPDSLREILSKWKPEDSKNPKKNTPKFLYTIPNG-NNPTGNSLTSDRKKEIYELA
          LGCNIISVASDEHGMVPDSLREILSKWKPEDSKNPKKNTPKFLYT.PNG...PTGNSLTS.RKKE.YELA
Retrocopy LGCNIISVASDEHGMVPDSLREILSKWKPEDSKNPKKNTPKFLYTTPNG<HHPTGNSLTSGRKKETYELA

Parental  RIYDFLIIEDDPYYFLQFNKFKSWAPTFLSMDVDGRVIRADSFSKVLSSGLRVGFLTGPRPLIQRVVLHT
          RIYD.LIIEDDPYYFLQFN..KSWAPTFLSMDV.G.VIR.D.FSKVLSSGLRVGF.TGPRPLIQRVVLHT
Retrocopy RIYDLLIIEDDPYYFLQFN--KSWAPTFLSMDVNGCVIRVDAFSKVLSSGLRVGFFTGPRPLIQRVVLHT

Parental  EVSALHPSTFNQLMVSQLLHQWGQEGFLVHVHRVIDFYRSQRDAALAAADRWLSGLAEWHIPTAGMFLWI
          EVSALHPSTFNQLMVSQLL.Q.GQEGFL.HVHRV..FYRSQRDA.LAAADRWL.GLAEWH.PTAGMFLWI
Retrocopy EVSALHPSTFNQLMVSQLLPQ*GQEGFLAHVHRVTGFYRSQRDAVLAAADRWLRGLAEWHVPTAGMFLWI

Parental  KIKGISDVRELIEE-KAIKKEILLLPGNGFYNNSSAPSPYVRVSFSSASPEQMDVAFKILAQLIKESL
          KIKGISDVRELIEE.KAIKKEILLLPG.GFYNNSSAPSPYVRVSFSSASPEQMD.AFKILAQLIKESL
Retrocopy KIKGISDVRELIEE<KAIKKEILLLPGKGFYNNSSAPSPYVRVSFSSASPEQMDMAFKILAQLIKESL

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_1395 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000008331	2 retrocopies	retro_ogar_1395 , retro_ogar_90,
Tupaia belangeri	ENSTBEG00000015548	1 retrocopy	retro_tbel_4254,