RetrogeneDB ID: retro_nleu_1095

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397281.1:20827832..20828267(+)
• Located in intron of: ENSNLEG00000010004

Retrocopy information

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

Parental gene information

• Parental gene symbol: C11ORF73
• Ensembl ID: ENSNLEG00000016224
• Aliases: None
• Description: None

Sequence

>retro_nleu_1095
GGCTCTGTCTACTTTTCCTATCCTGATTCAAATGGGATGCCAGTATGACAACTCCTATGATTTGTCATGAATGGGAAACC
AAGTGCCATCTTCAAAATTTCAGGTCTTAAATCTGGAGGAGGAAGCCAATATCCCTTTGGAGCCATGAATATTGTCCAAA
CTCCATCTGTTGCTCAGATGGGAATTTCGGTGGAATCACTGGACAGTATGGCTCACCAGACTCCTGTAGGTAATGCTGTA
TCCTCAGTTGACTCATTCACTCTGTTCACACAAAAGATGTTGGACAACTTATACAATTTTGCTTCATCGTTCGCTGTCTC
TCAGGCCCAGATGACACCAAGCCTATATGAAATGTTCATTCTGCAAAGTGTGTTTCTGAAATGGTATGAAAACTTTCAAA
GATGACTACCACAGAACCCTCTCTTTTGGAAAACA

Alignment

ORF - retro_nleu_1095 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.3 %
• Parental protein coverage: 74.11 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GSVYFSYPDSNGMPVWQLLGFVTNGKPSAIFKISGLKSGEGSQHPFGAMNIVRTPSVAQIGISVELLDSM
          GSVYFSYPDSNGMPV.QLL.FV.NGKPSAIFKISGLKSG.GSQ.PFGAMNIV.TPSVAQ.GISVE.LDSM
Retrocopy GSVYFSYPDSNGMPV*QLL*FVMNGKPSAIFKISGLKSGGGSQYPFGAMNIVQTPSVAQMGISVESLDSM

Parental  AQQTPVGNAAVSSVDSFTQFTQKMLDNFYNFASSFAVSQAQMTPSPSEMFIPANVVLKWYENFQRRLAQN
          A.QTPVGN.AVSSVDSFT.FTQKMLDN.YNFASSFAVSQAQMTPS..EMFI...V.LKWYENFQR.L.QN
Retrocopy AHQTPVGN-AVSSVDSFTLFTQKMLDNLYNFASSFAVSQAQMTPSLYEMFILQSVFLKWYENFQR*LPQN

Parental  PLFWKT
          PLFWKT
Retrocopy PLFWKT

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_1095 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 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000015605	1 retrocopy	retro_ecab_720,
Homo sapiens	ENSG00000149196	1 retrocopy	retro_hsap_4658,
Gorilla gorilla	ENSGGOG00000023168	1 retrocopy	retro_ggor_2891,
Myotis lucifugus	ENSMLUG00000016260	1 retrocopy	retro_mluc_784,
Mus musculus	ENSMUSG00000062797	1 retrocopy	retro_mmus_3722,
Nomascus leucogenys	ENSNLEG00000016224	1 retrocopy	retro_nleu_1095 ,
Oryctolagus cuniculus	ENSOCUG00000013108	2 retrocopies	retro_ocun_1147, retro_ocun_280,
Pongo abelii	ENSPPYG00000003746	1 retrocopy	retro_pabe_3618,
Pan troglodytes	ENSPTRG00000004144	1 retrocopy	retro_ptro_3094,
Tupaia belangeri	ENSTBEG00000009192	2 retrocopies	retro_tbel_1594, retro_tbel_3248,
Tursiops truncatus	ENSTTRG00000012267	1 retrocopy	retro_ttru_562,