RetrogeneDB ID: retro_nleu_2706

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397404.1:298269..299139(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACAA2
• Ensembl ID: ENSNLEG00000011576
• Aliases: None
• Description: None

Sequence

>retro_nleu_2706
TTGGCAAGGCATGTTGGTTTGCTTGTGGGAATCCCAAAGGAGACCCCAGCTCTCATGATTAATAGGCTCTGTGGTTCTGG
TTTTCAGTCCATTGTGAATGGGTGTTAGCAAATTTGTGTTAAAGAAGCTGAAGTTGTTTTATGCGGAGGAACCGAAAGCA
TGAGCCAAGCTCCCTACTGTGTCAGAAATGTGCGTTTTGGAACGAAGCTTGGATCAGATATCAAGCTGGAAGATTCTTTA
TGGGTAGGATTAACAGATCAGCGTGTCCAGCTCCCCATGGCAATGACTGCAGAGAATCTTGCTGTAAAACATAAAATAAG
CAGAGAAGAATGTGACAAATACGCCCTGCAGTCACAGCAGAGATGGAAAGCTTCTAATGATGCTGGCTACTTTAATGATG
AAATGGCACCAATTGAAGTGAAGACAAAGAAAGGAAAACAGACAATGCAGGTAGATGAGCATGCTGGGCCCCAAACAACC
CTGAAATAGTTACAGAAACTTCCTCCAGTATTCAAGAAAGATGGAACTGTCACTGCAGGGAATGCATCGGGGATAGCTGA
TGGTGCTGGAGCTGTTATCATAACTAGTGAAGATGCTGTTAAGAAACATAACTTCACACCACTGACAAGAATTTTGGGCT
ACTTTGTATCTGGATGTGATCCTTCTATCATGGGTATTGGTCCTGTCCCTGCTATCAGTGGGGCACTGAAGAAAACAGGA
CTGAGTCTTAAGAACATGGATTTGGTAGAGGTGAATGAAGCTTTTGCTCCCCAGTAATTGGCTGTTGAGAAGAGTTTGGA
TCTTGACATAAGTAAAACCAATGTGAATGGAGGAGCCATTGCTTTGGGTCACCCACTGGGAGGATCTGGA

Alignment

ORF - retro_nleu_2706 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.79 %
• Parental protein coverage: 73.05 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LARHVGLRVGIPKETPALTINRLCGSGFQSIVNGCQEICVKEAEVVLCGGTESMSQAPYCVRNVRFGTKL
          LARHVGL.VGIPKETPAL.INRLCGSGFQSIVNGC..ICVKEAEVVLCGGTESMSQAPYCVRNVRFGTKL
Retrocopy LARHVGLLVGIPKETPALMINRLCGSGFQSIVNGC*QICVKEAEVVLCGGTESMSQAPYCVRNVRFGTKL

Parental  GSDIKLEDSLWVGLTDPHVQLPMAMTAENLAVKHKISREECDKYALQSQQRWKTANDAGYFNDEMAPIEV
          GSDIKLEDSLWVGLTD..VQLPMAMTAENLAVKHKISREECDKYALQSQQRWK..NDAGYFNDEMAPIEV
Retrocopy GSDIKLEDSLWVGLTDQRVQLPMAMTAENLAVKHKISREECDKYALQSQQRWKASNDAGYFNDEMAPIEV

Parental  KTKKGKQTMQVDEHARPQTTLEQLQKLPPVFKKDGTVTAGNASGIADGAGAVIIASEDAVKKHNFTPLAR
          KTKKGKQTMQVDEHA.PQTTL..LQKLPPVFKKDGTVTAGNASGIADGAGAVII.SEDAVKKHNFTPL.R
Retrocopy KTKKGKQTMQVDEHAGPQTTLK*LQKLPPVFKKDGTVTAGNASGIADGAGAVIITSEDAVKKHNFTPLTR

Parental  IVGYFVSGCDPSIMGIGPVPAISGALKKAGLSLKDMDLVEVNEAFAPQYLAVERSLDLDISKTNVNGGAI
          I.GYFVSGCDPSIMGIGPVPAISGALKK.GLSLK.MDLVEVNEAFAPQ.LAVE.SLDLDISKTNVNGGAI
Retrocopy ILGYFVSGCDPSIMGIGPVPAISGALKKTGLSLKNMDLVEVNEAFAPQ*LAVEKSLDLDISKTNVNGGAI

Parental  ALGHPLGGSG
          ALGHPLGGSG
Retrocopy ALGHPLGGSG

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_2706 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 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009411	1 retrocopy	retro_amel_602,
Equus caballus	ENSECAG00000019394	1 retrocopy	retro_ecab_454,
Homo sapiens	ENSG00000167315	1 retrocopy	retro_hsap_4829,
Gorilla gorilla	ENSGGOG00000012552	1 retrocopy	retro_ggor_3011,
Myotis lucifugus	ENSMLUG00000022960	1 retrocopy	retro_mluc_654,
Nomascus leucogenys	ENSNLEG00000011576	1 retrocopy	retro_nleu_2706 ,
Ochotona princeps	ENSOPRG00000007567	2 retrocopies	retro_opri_1224, retro_opri_348,
Pan troglodytes	ENSPTRG00000010016	1 retrocopy	retro_ptro_3214,
Vicugna pacos	ENSVPAG00000012121	1 retrocopy	retro_vpac_625,