RetrogeneDB ID: retro_ogar_1750

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873563.1:13924298..13925312(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: B5SNJ7_OTOGA
• Ensembl ID: ENSOGAG00000004298
• Aliases: None
• Description: Protein disulfide isomerase-associated 3 (Predicted) [Source:UniProtKB/TrEMBL;Acc:B5SNJ7]

Sequence

>retro_ogar_1750
ATGCGCCTCCGCAGCCTAACCCTGGCAGGGGCGTGGCGCTGTTTCTCACCGGTCTCGCCGGTCTCGCTGCTGTCGCCGAT
GTGCCGGAACTCACGGAAGACAACTTCGAGAGTCGCGTCTCCGAGTCCGCGGGCCTCAGGCTGGTGGAGTTCTTTGCCCC
CTGGTGTGGGACATTGCAAGACGCTTGCCCCTGGGTATGAAGCTGCAGCCACCAGATTAAAAGGAGTAGTTCCATTAGCT
AAGGTTGATTGTACTGCTAACACAAACACTTGTAATAAGTACGGAGTCAGTGGATATCCAACCCTGAAGATATTCAGAGA
TGGTGAAGAAGCAGGTGCTTAGGATGAGCCTAGGACGGCAGATGGAATTGTCAGCCACCTAAAGAAGCAGGCAGGACCAG
CTTCAGTTCCTCTCAAGACCGAGGAAGAATTTAAGAAATTCGTTAGTGATAAAGATGCCTCTGTAGTAAGTTTTTTCAAG
GATTTATTCAGTGATGCACACTCTGAGTTCCTAAAAGCAGCCAGCAACTTGAGGGATAGTTACCGCTTTGCACACACCAG
TGTTGAATCTCTGGTGAAGGAGTATGATGATGATGGAGAGGGTATCGTCTTATTTCGTCCTTCACATCTAATGAACAAAT
TTGAGGACAAGACTGTGGCCTATGCAGAACAGAAAATGACCAGTGGCAAGATTAAAAGGTTTATACAGGAAAACATTTTT
GGTGTCTGCCCTCACATGACAGAAGACAATAAAGATTTGATACAGGGCAAGGACTTACCAATTGCTTACTGTGATGTAGA
CTATGAAAAGAAGGTTAAAGGTTCCAACTACTGGAGAAACAGAGTAATGATGGTGGCAAAGGAATTCCTGGGTGGTGGAC
ACAAACTCAACTTTGCTGTAGCTAGCCATAAAACCCTTAGCCATGAGCTTTCTGACTTTGGCTTAGAAGGCACTGCTGGA
GAGATTCCTGTTGTTGCTCTCAGAACTGCTAAAGGAGAGAAGTTTGTCATGCAG

Alignment

ORF - retro_ogar_1750 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.13 %
• Parental protein coverage: 67.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MRLRRLTLV-RGVALFLTGLAGLAAASDVLELTDDNFESRVSDTGSAGLMLVEFFAPWCG-HCKRLAPEY
          MRLR.LTL..RGVAL.............V.ELT.DNFESRVS...SAGL.LVEFFAPWCG.HCK.LAP.Y
Retrocopy MRLRSLTLA<RGVALXXXXXXXXXXXXXVPELTEDNFESRVSE--SAGLRLVEFFAPWCG>HCKTLAPGY

Parental  EAAATRLKGIVPLAKVDCTANTNTCNKYGVSGYPTLKIFRDGEEAGAYDGPRTADGIVSHLKKQAGPASV
          EAAATRLKG.VPLAKVDCTANTNTCNKYGVSGYPTLKIFRDGEEAGA.D.PRTADGIVSHLKKQAGPASV
Retrocopy EAAATRLKGVVPLAKVDCTANTNTCNKYGVSGYPTLKIFRDGEEAGA*DEPRTADGIVSHLKKQAGPASV

Parental  PLKTEEEFKKFVSDKDASVVGFFKDLFSDAHSEFLKAASNLRDNYRFAHTNVESLVKEYDDDGEGIVLFR
          PLKTEEEFKKFVSDKDASVV.FFKDLFSDAHSEFLKAASNLRD.YRFAHT.VESLVKEYDDDGEGIVLFR
Retrocopy PLKTEEEFKKFVSDKDASVVSFFKDLFSDAHSEFLKAASNLRDSYRFAHTSVESLVKEYDDDGEGIVLFR

Parental  PPHLMNKFEDKTVAYTEQKMTSGKIKKFIQENIFGICPHMTEDNKDLIQGKDLLIAYYDVDYEKNAKGSN
          P.HLMNKFEDKTVAY.EQKMTSGKIK.FIQENIFG.CPHMTEDNKDLIQGKDL.IAY.DVDYEK..KGSN
Retrocopy PSHLMNKFEDKTVAYAEQKMTSGKIKRFIQENIFGVCPHMTEDNKDLIQGKDLPIAYCDVDYEKKVKGSN

Parental  YWRNRVMMVAKKFLDGGHKLNFAVASRKTFSHELSDFGLEGTAGEIPVVAIRTAKGEKFVMQ
          YWRNRVMMVAK.FL.GGHKLNFAVAS.KT.SHELSDFGLEGTAGEIPVVA.RTAKGEKFVMQ
Retrocopy YWRNRVMMVAKEFLGGGHKLNFAVASHKTLSHELSDFGLEGTAGEIPVVALRTAKGEKFVMQ

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_1750 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000167004	1 retrocopy	retro_hsap_217,
Gorilla gorilla	ENSGGOG00000023440	1 retrocopy	retro_ggor_287,
Myotis lucifugus	ENSMLUG00000009380	1 retrocopy	retro_mluc_2352,
Otolemur garnettii	ENSOGAG00000004298	1 retrocopy	retro_ogar_1750 ,
Procavia capensis	ENSPCAG00000012905	1 retrocopy	retro_pcap_409,
Pan troglodytes	ENSPTRG00000007002	1 retrocopy	retro_ptro_331,