RetrogeneDB ID: retro_nleu_1102

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397281.1:7061343..7062148(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EIF5
• Ensembl ID: ENSNLEG00000016105
• Aliases: None
• Description: None

Sequence

>retro_nleu_1102
GGAAAGAGTTATGAGGAAAACAAATATATAAAGGGCAAAGACAAGGACAATGTATCCAGCAGTGAGACACCACCACCAAA
GAAATTAGCCCTCCTCCACATACAGTGCAAGAAGAGGAGGATGACTGGGGGGAAGATACAACTGAGGAAGCTCAAAGGTG
CAGAATGGATGAAATCAGTGATCATGCAAAAGTTCTGATACTCTGTGATGATTCGGAAAAAACAGTTGAGGAGTGGGCCA
ACATCCTGTTTGATTTTGTGAAGAAAAAGAAAGAAGAGGGTATCATCGATTTATGTGACAAAGAAATTGTTACTGAAGCA
GAAGGACTGGATGTAAAAGCCATGGGACCTCTTGTTCTGACTGAAGTTCTTTTTAAAGAGGAGATTAGAGAACACATAAG
AAATACAGGCACCATTTCTTATGATTTTGTCACAACAACAAAAAAGCTCAGTGGTATCTTCTTCATGGCTTGACGTGTAG
GGTAGCAATGTGCCAAGCTCCGCTTATCTCCAAGATTCCACATATCTTGAAGGAGATGTATGCTGTAGATTTTTTAGAAG
AAGAGGTTGTCATCAGCTGGTCGGAAAAAGGCCTTTAAGAAACATGTCTCAAAAGAACTTGCCAAAGAGATTCATATCAA
AGCAGAACCATTTATAAAATGAAGGAAGCAGAGGAAGAATCTTCTGGTGGTGAAGAAGATGAAGATGAGAACACTGAGGT
GGTGTATTAGAAGACTGCCAGTGTACCCAAAGTTGAAACTGTAAAGTCCAACAACAAGGATGATGACGTTGATATTGATG
CCATT

Alignment

ORF - retro_nleu_1102 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.3 %
• Parental protein coverage: 64.5 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  GKKEKEKKNRKGKDKENGSVSSSETPPPPPPPN-EISPPPHTMEEEEDDDWGEDTTEEAQRRRMDEISDH
          GK...E.K..KGKDK.N..VSSSET....PPP..EISPPPHT..EEEDD.WGEDTTEEAQR.RMDEISDH
Retrocopy GKSYEENKYIKGKDKDN--VSSSET----PPPK<EISPPPHTVQEEEDD-WGEDTTEEAQRCRMDEISDH

Parental  AKVLTLSDDLERTIEERVNILFDFVKKKKEEGVIDSSDKEIVAEAERLDVKAMGPLVLTEVLFNEKIREQ
          AKVL.L.DD.E.T.EE..NILFDFVKKKKEEG.ID..DKEIV.EAE.LDVKAMGPLVLTEVLF.E.IRE.
Retrocopy AKVLILCDDSEKTVEEWANILFDFVKKKKEEGIIDLCDKEIVTEAEGLDVKAMGPLVLTEVLFKEEIREH

Parental  I-KKYRRHFLRFCHNNKKAQRYLLHGLECVVAMHQAQLISKIPHILKEMYDADLLEEEVIISWSE-KASK
          I.KKYR.HFL.FCHNNKKAQ.YLLHGL.C.VAM.QA.LISKIPHILKEMY..D.LEEEV.ISWSE.KA.K
Retrocopy I<KKYRHHFL*FCHNNKKAQWYLLHGLTCRVAMCQAPLISKIPHILKEMYAVDFLEEEVVISWSE>KAFK

Parental  KYVSKELAKEIRVKAEPFIKWLKE-AEEESSGGEEEDEDENIEVVYSKTASVPKVETVKSDNKDDDIDID
          K.VSKELAKEI..KAEPFIK..K...EE.S.G..EEDEDEN.EVVY.KTASVPKVETVKS.NKDDD.DID
Retrocopy KHVSKELAKEIHIKAEPFIK*RKQ<EEESSGG--EEDEDENTEVVY*KTASVPKVETVKSNNKDDDVDID

Parental  AI
          AI
Retrocopy AI

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_1102 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000001236	1 retrocopy	retro_cpor_577,
Homo sapiens	ENSG00000100664	1 retrocopy	retro_hsap_4782,
Monodelphis domestica	ENSMODG00000013424	1 retrocopy	retro_mdom_2000,
Nomascus leucogenys	ENSNLEG00000016105	1 retrocopy	retro_nleu_1102 ,
Pongo abelii	ENSPPYG00000006169	1 retrocopy	retro_pabe_3722,
Pan troglodytes	ENSPTRG00000006753	1 retrocopy	retro_ptro_3183,
Rattus norvegicus	ENSRNOG00000010218	2 retrocopies	retro_rnor_1781, retro_rnor_2459,