RetrogeneDB ID: retro_ogar_2003

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873579.1:11410799..11411041(-)
• Located in intron of: ENSOGAG00000006430

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF11
• Ensembl ID: ENSOGAG00000011682
• Aliases: None
• Description: ring finger protein 11 [Source:HGNC Symbol;Acc:10056]

Sequence

>retro_ogar_2003
ATAGGCCTTATCCAGCATCTGCCTAAGGGAGTTTATGACCCTGGAAGAGATGGATCCGAGAAGATGATCCGGGAGTGCAT
GATCTGTATGATGGACTTTGTTTATAGGGACCTAATTTGATTTCTGCCGTGCATGCACATCTATCACCTGGACTGTATAG
ATGATGGTTGATGAGATCCTTCACGTGTGTCTCCTGCATGAAGCCAGTTGATGCAGCAGTGCTTTCATCCTACGAGACTA
AC

Alignment

ORF - retro_ogar_2003 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.95 %
• Parental protein coverage: 52.6 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IGVIIHLPRAPFEPSSSGVFKIIHLCVICMMDFVYGDPIRFLPCMHIYHLDCIDD-WLMRSFTCPSCMEP
          IG.I.HLP.....P...G..K.I..C.ICMMDFVY.D.I.FLPCMHIYHLDCIDD.WLMRSFTC.SCM.P
Retrocopy IGLIQHLPKGVYDPGRDGSEKMIRECMICMMDFVYRDLI*FLPCMHIYHLDCIDD<WLMRSFTCVSCMKP

Parental  VDAALLSSYETN
          VDAA.LSSYETN
Retrocopy VDAAVLSSYETN

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_2003 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000006072	1 retrocopy	retro_etel_873,
Homo sapiens	ENSG00000123091	1 retrocopy	retro_hsap_3925,
Gorilla gorilla	ENSGGOG00000004919	1 retrocopy	retro_ggor_2641,
Myotis lucifugus	ENSMLUG00000004439	1 retrocopy	retro_mluc_145,
Otolemur garnettii	ENSOGAG00000011682	1 retrocopy	retro_ogar_2003 ,
Pongo abelii	ENSPPYG00000001361	1 retrocopy	retro_pabe_3241,
Pan troglodytes	ENSPTRG00000041089	1 retrocopy	retro_ptro_2669,
Ictidomys tridecemlineatus	ENSSTOG00000020072	4 retrocopies	retro_itri_1747, retro_itri_1886, retro_itri_633, retro_itri_974,
Tursiops truncatus	ENSTTRG00000010211	1 retrocopy	retro_ttru_1644,