RetrogeneDB ID: retro_ogar_2457

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873624.1:5793893..5794260(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GGCT
• Ensembl ID: ENSOGAG00000013316
• Aliases: None
• Description: gamma-glutamylcyclotransferase [Source:HGNC Symbol;Acc:21705]

Sequence

>retro_ogar_2457
CCTCGTTCTGCTGCATGGCTTACAGCAAGGATTTTAAACTTTGGTAATTCCCACGGCATAACAAGTCAAACTTGGTACGA
GGTGTAGCCACCATTTTTCCAAGTGTTGGCAAGGAAGTGTGGGGAATAGTATGAAAAATGAACAAATGCAATTTAAATTC
TCTGGATGAGCAAGACAGGGTTAAAATGGAACACATGTTGCAATAGAAGCTAAGGTTTCTACTCAAGAAGGAAGGGAAAT
AGCCTGTTGAAGTTATCTGAGGACAGATCATGAGAGTGCTCCCCCATCACCACAGAATAAAAAGGTGATGTGGATGGGTG
CAAAAGAAAATAGTTTGCCACTGAAGCATCAAGAGAAGTTAAAAGCC

Alignment

ORF - retro_ogar_2457 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.02 %
• Parental protein coverage: 67.91 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PSAAFYCVARLQDFKLDFGNSQGKTSETWHG-GIATIFQSPGDEVWGVVWKMNKSNLNSLDEQEGVK-SG
          P..A....AR.....L.FGNS.G.TS.TW...G.ATIF.S.G.EVWG.V.KMNK.NLNSLDEQ..VK..G
Retrocopy PRSAAWLTARI----LNFGNSHGITSQTWYE<GVATIFPSVGKEVWGIV*KMNKCNLNSLDEQDRVK<NG

Parental  IYVVIEVKVLTQEGRTITCRSYLMTNYKRAPPSPQYKKVICMGAEENGLPLEYQEKLKA
          ..V.IE.KV.TQEGR.I.C.SYL.T....APPSPQ.KKV..MGA.EN.LPL..QEKLKA
Retrocopy THVAIEAKVSTQEGREIAC*SYLRTDHESAPPSPQNKKVMWMGAKENSLPLKHQEKLKA

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_2457 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008757	1 retrocopy	retro_chof_467,
Callithrix jacchus	ENSCJAG00000008589	1 retrocopy	retro_cjac_1211,
Dasypus novemcinctus	ENSDNOG00000007242	1 retrocopy	retro_dnov_2324,
Mustela putorius furo	ENSMPUG00000005083	1 retrocopy	retro_mputfur_1157,
Otolemur garnettii	ENSOGAG00000013316	1 retrocopy	retro_ogar_2457 ,
Ochotona princeps	ENSOPRG00000005329	2 retrocopies	retro_opri_170, retro_opri_505,