RetrogeneDB ID: retro_ogar_1373

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873544.1:21647947..21648602(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000001349
• Aliases: None
• Description: None

Sequence

>retro_ogar_1373
GAATTCAGGCAGGTGATGAAAGGCTTTCAAAACCAGAAGCACAAGAAGGGGGAAAGTGTTCCAAGAGCCTTCATTTCTTG
AGGTCCCCAAATCAGTGGACTGGAGAGAGAAAGGCTATGTGACTCCTGTGAAGAATCAGGGTCAGTGTGGTTCTTGTTGG
GCTTTTAGTGCAACTGGTGCCCTTGAAGGACAGATGCTCTGGAAAACTGACAAACTTATCTCACTGAGTGAGCAGAACCT
GGTGGACTGCTCTCAGCCTCAAGGCAATGAAGGCTGCAATGGTGGCCTAATGGGCTATGTCTTCCAGTATATTAAGGAGA
ATGGAGGCCTGGACTCTGAAGAATCTTATCCGTATGATGCAGTGGATGAATCCTGTAAGTACAGGCCTGAGTATTCCATT
GCAAATGACACTGGCTTCGTGGATGTCCCTAAAGAGGAGAAGGCCCTGATGAAGGCCAGAGCAACTGTGGGGCCTGTCTC
TGTTGCTATTGAGGCAGGCCATGAGTCTTTCTAGTTCTATAAAGCAGGTGTTTGTTTTGAGCCAGATTTTAGCAGTGAAA
ATATGGATCACAGTGTACTGGTAGTTGGCTACAGATTTGAAAAAACAGAATTGGATAACAATAAGTATTGACTGGTGAAG
AACAGCTGGGGTGAA

Alignment

ORF - retro_ogar_1373 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.91 %
• Parental protein coverage: 65.57 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EFRQVMNGFRNQKHKK-GKVFQEPSFLEVPKSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKT
          EFRQVM.GF.NQKHKK.GKVFQEPSFLEVPKSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQM..KT
Retrocopy EFRQVMKGFQNQKHKK>GKVFQEPSFLEVPKSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMLWKT

Parental  GKLISLSEQNLVDCSRPQGNEGCDGGLMDYAFQYIKENGGLDSEESYPYDAMKDESCKYRPEYSVANDTG
          .KLISLSEQNLVDCS.PQGNEGC.GGLM.Y.FQYIKENGGLDSEESYPYDA..DESCKYRPEYS.ANDTG
Retrocopy DKLISLSEQNLVDCSQPQGNEGCNGGLMGYVFQYIKENGGLDSEESYPYDAV-DESCKYRPEYSIANDTG

Parental  FVDIPKEEKALMKAVATVGPISVAIDAGHESFQFYKEGVYFEPECSSDNVDHGVLVVGYGYEETESDNNK
          FVD.PKEEKALMKA.ATVGP.SVAI.AGHESF.FYK.GV.FEP..SS.N.DH.VLVVGY..E.TE.DNNK
Retrocopy FVDVPKEEKALMKARATVGPVSVAIEAGHESF*FYKAGVCFEPDFSSENMDHSVLVVGYRFEKTELDNNK

Parental  FWLVKNSWGE
          ..LVKNSWGE
Retrocopy Y*LVKNSWGE

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_1373 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 8 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007548	8 retrocopies	retro_chof_1227, retro_chof_1332, retro_chof_1345, retro_chof_141, retro_chof_1464, retro_chof_2392, retro_chof_383, retro_chof_424,
Dasypus novemcinctus	ENSDNOG00000012037	1 retrocopy	retro_dnov_2387,
Macropus eugenii	ENSMEUG00000002168	2 retrocopies	retro_meug_1349, retro_meug_1567,
Macropus eugenii	ENSMEUG00000014293	1 retrocopy	retro_meug_1873,
Macropus eugenii	ENSMEUG00000016209	2 retrocopies	retro_meug_159, retro_meug_1727,
Monodelphis domestica	ENSMODG00000002844	1 retrocopy	retro_mdom_1101,
Otolemur garnettii	ENSOGAG00000001349	2 retrocopies	retro_ogar_1053, retro_ogar_1373 ,
Petromyzon marinus	ENSPMAG00000003453	1 retrocopy	retro_pmar_7,