RetrogeneDB ID: retro_nleu_430

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397265.1:3366047..3366581(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000007131
• Aliases: None
• Description: None

Sequence

>retro_nleu_430
AGGGAAAGCACACTCTTGCTGAGAAAATATCAAATGAGTGTGCAAGAAAAGAGGAGCAGCTCTCACCTATACTATATACC
TGCACGGCATCTTGATAGAAAATACAGCTCATGTTCCACCATGTTGCTAGATAACAGCACACTCAGCCAGCCTGATCTTA
GACACACATTAGAAAGTGTGGCTTTGGCAATATATTACGACATAAAGCACAGATACGCAAATAGATCTCTGGCTATTTTT
GAAGAGCCAGTACATCCACTTTCACAAGACAAGGTTCCAGGGAAATCCTTCAAGCCTGATCCCAAACGCAACTGTGTTTT
CAGATATTTCTGTACTCTTTCTCAAGTCGTAAAACTAACAGCTCCATGTGCAATCGTAGCTTTGGTGTACATCGAACGAC
TTCTAACTAGTGCTAACATCGATCTTTGTCCCACTAATTGGAAAAAGATTGTCCTCGGAGCCCTGCTTCTTGCCTCCAAA
GTGCGGAGAAATCATGGTCTGTGGAGTGTGGGTGACAGCCAGAAGCCCAAGGAC

Alignment

ORF - retro_nleu_430 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.74 %
• Parental protein coverage: 58.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RASTIFLSKSQTDVREKRKSNHLNHVSPGQLTKKYSSCSTIFLDDSTVSQPNLRTTVKCVTLAIYYHIKN
          R.ST..L.K.Q..V.EKR.S.HL.......L..KYSSCST..LD.ST.SQP.LR.T...V.LAIYY.IK.
Retrocopy RESTLLLRKYQMSVQEKRSSSHLYYIPARHLDRKYSSCSTMLLDNSTLSQPDLRHTLESVALAIYYDIKH

Parental  RDANRSLDIFDERSHPLTREKVPEEYFKHDPEHKFIYRFVRTLFSAAQLTAECAIVTLVYLERLLTYAEI
          R.ANRSL.IF.E..HPL...KVP...FK.DP......R...TL.....LTA.CAIV.LVY.ERLLT.A.I
Retrocopy RYANRSLAIFEEPVHPLSQDKVPGKSFKPDPKRNCVFRYFCTLSQVVKLTAPCAIVALVYIERLLTSANI

Parental  DICPTNWKRIVLGAILLASKVWDDQAVWNVDYCQILKD
          D.CPTNWK.IVLGA.LLASKV......W.V...Q..KD
Retrocopy DLCPTNWKKIVLGALLLASKVRRNHGLWSVGDSQKPKD

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_430 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002901	1 retrocopy	retro_cjac_569,
Homo sapiens	ENSG00000163249	3 retrocopies	retro_hsap_1629, retro_hsap_1984, retro_hsap_4845,
Macaca mulatta	ENSMMUG00000020211	1 retrocopy	retro_mmul_2587,
Mus musculus	ENSMUSG00000070871	1 retrocopy	retro_mmus_3072,
Nomascus leucogenys	ENSNLEG00000007131	3 retrocopies	retro_nleu_1164, retro_nleu_2902, retro_nleu_430 ,
Pongo abelii	ENSPPYG00000013118	3 retrocopies	retro_pabe_1345, retro_pabe_3766, retro_pabe_76,