RetrogeneDB ID: retro_ogar_2710

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873652.1:4046603..4046897(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ERH
• Ensembl ID: ENSOGAG00000029388
• Aliases: None
• Description: enhancer of rudimentary homolog (Drosophila) [Source:HGNC Symbol;Acc:3447]

Sequence

>retro_ogar_2710
TCTCACACCATTTTGCTGGTACAGCCTACTAAGAGGCCAGAAGGCAGAACTTACGCTGACTATGAATCTGTGAATGAGTG
CACGGAAGGCGTTTGTAAAATGTATGAAGAACATCTGAAGAGAATGAATCCCAACAGTCCCTCTATCACATGATATCAGT
TGTTTGATTTTATCGATGACCTGGCAGACCTCAGCTGTCTGGTTTACTGAGCTGATACCCAGACATACCAGCCTTATAAC
AAAGACTGGATTAAAGAGAAGATCTACGGTCAGCAGGCACAACAGGCCGGGAAA

Alignment

ORF - retro_ogar_2710 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.65 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SHTILLVQPTKRPEGRTYADYESVNECMEGVCKMYEEHLKRMNPNSPSIT-YDISQLFDFIDDLADLSCL
          SHTILLVQPTKRPEGRTYADYESVNEC.EGVCKMYEEHLKRMNPNSPSIT.Y......D...DLADLSCL
Retrocopy SHTILLVQPTKRPEGRTYADYESVNECTEGVCKMYEEHLKRMNPNSPSIT*YQLFDFID---DLADLSCL

Parental  VYRADTQTYQPYNKDWIKEKIYVLLRRQAQQAGK
          VY.ADTQTYQPYNKDWIKEKIY.....QAQQAGK
Retrocopy VY*ADTQTYQPYNKDWIKEKIY---GQQAQQAGK

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_2710 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 10 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014529	1 retrocopy	retro_amel_1906,
Callithrix jacchus	ENSCJAG00000014940	2 retrocopies	retro_cjac_209, retro_cjac_846,
Dipodomys ordii	ENSDORG00000006912	3 retrocopies	retro_dord_250, retro_dord_406, retro_dord_562,
Equus caballus	ENSECAG00000019178	1 retrocopy	retro_ecab_45,
Macropus eugenii	ENSMEUG00000014602	3 retrocopies	retro_meug_1469, retro_meug_498, retro_meug_64,
Myotis lucifugus	ENSMLUG00000011879	1 retrocopy	retro_mluc_142,
Macaca mulatta	ENSMMUG00000021571	1 retrocopy	retro_mmul_1649,
Oryctolagus cuniculus	ENSOCUG00000004636	1 retrocopy	retro_ocun_42,
Otolemur garnettii	ENSOGAG00000029388	5 retrocopies	retro_ogar_1170, retro_ogar_1537, retro_ogar_2710 , retro_ogar_625, retro_ogar_854,
Rattus norvegicus	ENSRNOG00000004883	3 retrocopies	retro_rnor_1721, retro_rnor_2670, retro_rnor_308,