RetrogeneDB ID: retro_ogar_846

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873529.1:15892451..15892754(+)
• Located in intron of: ENSOGAG00000006059

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBM18
• Ensembl ID: ENSOGAG00000015104
• Aliases: None
• Description: RNA binding motif protein 18 [Source:HGNC Symbol;Acc:28413]

Sequence

>retro_ogar_846
TGTCTCAGTAGCAGGCTGGCTCTGTCTAAGAAGCTGGTGGTGCAGTGGGCACATGCTCAAGTAAAGAGATATGATCATAA
CAAGAATAAGATCCTTCCAATCAGTCTGAGCCATCCTCAAGCACTGCGCCTACTCAGTCTAATCTAAGTGTTATTGTAAA
GATAAAAGCCATTGAAGTAAAGCTGAAAACGATGGCAGAAAATCCTGATGCAGAATCCAGCAGTGCCTGTTTATTTCTAC
TTTAAGCCACCAGATAAAAAAAGGACTACTCCTTATTCTAGAACAGTCTGGAAATCTTGAAGA

Alignment

ORF - retro_ogar_846 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.33 %
• Parental protein coverage: 54.21 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  CLNGKLALSKKLVVRWAHAQVKRYDHNKNDKILPISL-EPSSSTEPTQSNLSVTAKIKAIEAKLKMMAEN
          CL...LALSKKLVV.WAHAQVKRYDHNKN.KILPISL.EPSSST.PTQSNLSV..KIKAIE.KLK.MAEN
Retrocopy CLSSRLALSKKLVVQWAHAQVKRYDHNKN-KILPISL<EPSSSTAPTQSNLSVIVKIKAIEVKLKTMAEN

Parental  PDAEYPAAPV-YSYFKPPDKKRTTPYSRTAWKSRR
          PDAE...A........P..K..TTPYSRT.WKS.R
Retrocopy PDAESSSACL>FYFKPPDKKR-TTPYSRTVWKS*R

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_846 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000013811	1 retrocopy	retro_cpor_237,
Myotis lucifugus	ENSMLUG00000004794	1 retrocopy	retro_mluc_298,
Monodelphis domestica	ENSMODG00000019688	1 retrocopy	retro_mdom_1462,
Oryctolagus cuniculus	ENSOCUG00000008527	1 retrocopy	retro_ocun_290,
Otolemur garnettii	ENSOGAG00000015104	1 retrocopy	retro_ogar_846 ,
Ochotona princeps	ENSOPRG00000010381	2 retrocopies	retro_opri_1123, retro_opri_360,
Ictidomys tridecemlineatus	ENSSTOG00000022388	1 retrocopy	retro_itri_1882,
Tupaia belangeri	ENSTBEG00000016520	1 retrocopy	retro_tbel_2898,