RetrogeneDB ID: retro_ogar_2739

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873657.1:2688092..2688516(-)
• Located in intron of: ENSOGAG00000004952

Retrocopy information

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

Parental gene information

• Parental gene symbol: MOB4
• Ensembl ID: ENSOGAG00000000272
• Aliases: None
• Description: MOB family member 4, phocein [Source:HGNC Symbol;Acc:17261]

Sequence

>retro_ogar_2739
GCTGTCAGACTTCAGAGTGAATGCCATCCAGATACTTGGACTCAAATGACAGCAACTGAACAATGGATTTTCCTTTGTGC
AGCTCATAAAACTCCAAAAGAGTGTCCTGCTATAGACTATAGTAGACACACACTTGATGGTGCTGCATGTCTTCTGAATA
GCAATAAATATTTTCCCAGCAGGGTTAGCATAAAGGAATCATCTGTAGAAAACCTAAGATCAGTATGCCGTAGGATTTAC
AGAATATTTTCACATGCTTTATTTTCATCACCGGCAGATATTTGATGAATATGAAAATGAAACATTTTTGTGTCATTGGT
TTACTAAATTTGTGATGAAATATAATTTGATGTCCAAGTATAACCTGATTGTACCAATTTTTGAAGAGCAAGTTCAGAAT
TCAGTTTCTGAGGAAAGTGAAGCA

Alignment

ORF - retro_ogar_2739 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.85 %
• Parental protein coverage: 62.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AVKLQSECHPDTCTQMTATEQWIFLCAAHKTPKECPAIDYTRHTLDGAACLLNSNKYFPSRKSIKESSVA
          AV.LQSECHPDT.TQMTATEQWIFLCAAHKTPKECPAIDY.RHTLDGAACLLNSNKYFPSR.SIKESSV.
Retrocopy AVRLQSECHPDTWTQMTATEQWIFLCAAHKTPKECPAIDYSRHTLDGAACLLNSNKYFPSRVSIKESSVE

Parental  KLGSVCRRIYRIFSHA-YFHHRQIFDEYENETFLCHRFTKFVMKYNLMSKDNLIVPILEEEVQNSVSGES
          .L.SVCRRIYRIFSHA.YFHHRQIFDEYENETFLCH.FTKFVMKYNLMSK.NLIVPI.EE.VQNSVS.ES
Retrocopy NLRSVCRRIYRIFSHA>YFHHRQIFDEYENETFLCHWFTKFVMKYNLMSKYNLIVPIFEEQVQNSVSEES

Parental  EA
          EA
Retrocopy EA

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_2739 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 14 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004020	2 retrocopies	retro_cjac_1960, retro_cjac_3238,
Cavia porcellus	ENSCPOG00000012746	2 retrocopies	retro_cpor_318, retro_cpor_804,
Homo sapiens	ENSG00000115540	2 retrocopies	retro_hsap_2275, retro_hsap_906,
Gorilla gorilla	ENSGGOG00000009005	2 retrocopies	retro_ggor_733, retro_ggor_743,
Latimeria chalumnae	ENSLACG00000015430	1 retrocopy	retro_lcha_112,
Macaca mulatta	ENSMMUG00000016547	1 retrocopy	retro_mmul_829,
Monodelphis domestica	ENSMODG00000012305	2 retrocopies	retro_mdom_1333, retro_mdom_963,
Oryctolagus cuniculus	ENSOCUG00000005712	1 retrocopy	retro_ocun_30,
Otolemur garnettii	ENSOGAG00000000272	1 retrocopy	retro_ogar_2739 ,
Ochotona princeps	ENSOPRG00000016650	2 retrocopies	retro_opri_444, retro_opri_812,
Pongo abelii	ENSPPYG00000013047	6 retrocopies	retro_pabe_1943, retro_pabe_2021, retro_pabe_3600, retro_pabe_781, retro_pabe_795, retro_pabe_970,
Sarcophilus harrisii	ENSSHAG00000017821	1 retrocopy	retro_shar_351,
Ictidomys tridecemlineatus	ENSSTOG00000021024	1 retrocopy	retro_itri_727,
Tarsius syrichta	ENSTSYG00000001726	1 retrocopy	retro_tsyr_1673,