RetrogeneDB ID: retro_ogar_2995

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873693.1:2226651..2227012(-)
• Located in intron of: ENSOGAG00000004523

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPL10
• Ensembl ID: ENSOGAG00000000099
• Aliases: None
• Description: ribosomal protein L10 [Source:HGNC Symbol;Acc:10298]

Sequence

>retro_ogar_2995
CCATTCCAATACATGTTCATGTGTTAGACCTTGGGCTGTCCCCAATCTAGGCTCCAGAAAGGTATCCATGGTGCCTTTGG
AAAGCCCCAGGGCACTGTGGCCAGGGTTCACATTGGCCAAGTCATCATGTCCATCTGCACTAAACTACAGAACAAGGAGT
ATGTGACTAAGGCCCTTCGCAGGGCCAGTTCAAGTTCCCTGTCTGTCAGAAGATTCACATCTCCAAAAAATAGGGTTTAC
CAAGTTTAACTCAGACAAATTTAAAGACATGGCAGCTGAGAAGTGGCTCATCCCAGATGGCTGTGGGGTCAAATACATTC
CCAGTCATGGCCCCGTGGACAAGTGGTGGGCCCTGCCCTCA

Alignment

ORF - retro_ogar_2995 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.97 %
• Parental protein coverage: 57.01 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PFHVIRINKMLSCAGADRPQTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALRRA-KFKFPG
          PF........L.C....R.Q.G..GAFGKPQGTVARVHIGQVIMSI.TKLQNKE.V..ALRRA..FKFP.
Retrocopy PFQYMFMC*TLGCPQS-RLQKGIHGAFGKPQGTVARVHIGQVIMSICTKLQNKEYVTKALRRA<QFKFPV

Parental  RQKIHISKK-WGFTKFNSDEFEDMVAEKRLIPDGCGVKYIPNRGPLDKWRALHS
          .QKIHISKK..GFTKFNSD.F.DM.AEK.LIPDGCGVKYIP..GP.DKW.AL.S
Retrocopy CQKIHISKK<IGFTKFNSDKFKDMAAEKWLIPDGCGVKYIPSHGPVDKWWALPS

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_2995 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.

---

Parental genes homology:

Parental genes homology involve 10 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000007454	2 retrocopies	retro_btau_140, retro_btau_99,
Cavia porcellus	ENSCPOG00000002355	1 retrocopy	retro_cpor_64,
Equus caballus	ENSECAG00000017154	1 retrocopy	retro_ecab_113,
Macropus eugenii	ENSMEUG00000013163	3 retrocopies	retro_meug_1839, retro_meug_5, retro_meug_547,
Microcebus murinus	ENSMICG00000004658	2 retrocopies	retro_mmur_1077, retro_mmur_4,
Monodelphis domestica	ENSMODG00000008731	2 retrocopies	retro_mdom_177, retro_mdom_829,
Mustela putorius furo	ENSMPUG00000009320	3 retrocopies	retro_mputfur_1405, retro_mputfur_54, retro_mputfur_84,
Mus musculus	ENSMUSG00000008682	1 retrocopy	retro_mmus_71,
Otolemur garnettii	ENSOGAG00000000099	3 retrocopies	retro_ogar_293, retro_ogar_2995 , retro_ogar_3284,
Ictidomys tridecemlineatus	ENSSTOG00000011857	2 retrocopies	retro_itri_174, retro_itri_506,