RetrogeneDB ID: retro_nleu_84

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397300.1:20064776..20065430(+)
• Located in intron of: ENSNLEG00000004981

Retrocopy information

• Ensembl ID: ENSNLEG00000019035
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: EIF4E1B
• Ensembl ID: ENSNLEG00000012532
• Aliases: None
• Description: None

Sequence

>retro_nleu_84
ATGGCGGCTGTCGAACCGGAAACCACCCCTATTCCTAATCCTCCGACTACAGAAGAGGAGAAAACCGAATCTAATCAGGA
GGTTGCTAACCCAGAACACTATATTAAACATCCCCTACAGAACAGATGGGCACTCTGGTTTTTTAAAAATGATAAAAGCA
AAATTTGGCAAGCAAACCAGTGGCTGATCTCTAAGTTTGATACTGTTGAAGACTTTTGGGCTCTGTACAACCGTATCCAG
TTGTCTAGTAATTTAATGCCTGGCTGTGACTACTCACTTTTTAAGGATGGTATTGAGCCTATGTGGGAAGATGAGAAAAA
CAAACGGGGAGGACGATGGCTAATTACATTGAATAAACAGCAGAGACGAAGTGACCTCAATCGCTTTTGGCTAGAGACAC
TTCTGTGCCTTATTGGAGAATCTTTTGATGACTACAGTGATCATGTTTGTGGCGCTGTTGTTAATGTTAGAGTTAAAGGT
GATAAGATAGCAATATGGACTACTGAATGTGAAAACAGAGAAGCTGTTGCACATATAGGGAGGGTATACAAGGAAAGGTT
AGGACTTCCTCCAAAGATAGTGATTGGTTATCAGTCCCACGCAGACACAGCTACTAAGAGCGGCTCCACCACTAAAAATA
GGTTTGTTGTTTAA

Alignment

ORF - retro_nleu_84 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.93 %
• Parental protein coverage: 75.1 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HPLQNRWALWFFKNDRSRAWQDNLHLVTKVDTVEDFWALYSHIQLASKLSSGCDYALFKDGIEPMWEDSR
          HPLQNRWALWFFKND.S..WQ.N..L..K.DTVEDFWALY..IQL.S.L..GCDY.LFKDGIEPMWED..
Retrocopy HPLQNRWALWFFKNDKSKIWQANQWLISKFDTVEDFWALYNRIQLSSNLMPGCDYSLFKDGIEPMWEDEK

Parental  NKRGGRWLVSLAKQQRHTELDRLWLETLLCLIGESFEEHSREVCGAVVNIRTKGDKIAVWTREAENQMGV
          NKRGGRWL..L.KQQR...L.R.WLETLLCLIGESF...S..VCGAVVN.R.KGDKIA.WT.E.EN...V
Retrocopy NKRGGRWLITLNKQQRRSDLNRFWLETLLCLIGESFDDYSDHVCGAVVNVRVKGDKIAIWTTECENREAV

Parental  LHIGHVYKERLGLSPKTIIGYQAHADTATKSNSLAKNKFVV
          .HIG.VYKERLGL.PK..IGYQ.HADTATKS.S..KN.FVV
Retrocopy AHIGRVYKERLGLPPKIVIGYQSHADTATKSGSTTKNRFVV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_84 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys 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 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000003103	1 retrocopy	retro_btau_1679,
Erinaceus europaeus	ENSEEUG00000005920	1 retrocopy	retro_eeur_414,
Loxodonta africana	ENSLAFG00000027919	1 retrocopy	retro_lafr_866,
Monodelphis domestica	ENSMODG00000005097	3 retrocopies	retro_mdom_1779, retro_mdom_47, retro_mdom_710,
Mus musculus	ENSMUSG00000074895	1 retrocopy	retro_mmus_510,
Nomascus leucogenys	ENSNLEG00000012532	1 retrocopy	retro_nleu_84 ,
Nomascus leucogenys	ENSNLEG00000014333	1 retrocopy	retro_nleu_1189,
Ochotona princeps	ENSOPRG00000008875	2 retrocopies	retro_opri_1088, retro_opri_21,
Tupaia belangeri	ENSTBEG00000001631	2 retrocopies	retro_tbel_3164, retro_tbel_3690,
Drosophila melanogaster	FBgn0035709	1 retrocopy	retro_dmel_68,