RetrogeneDB ID: retro_nleu_1438

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397293.1:21976423..21977188(+)
• Located in intron of: ENSNLEG00000004475

Retrocopy information

• Ensembl ID: ENSNLEG00000004478
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MRPS5
• Ensembl ID: ENSNLEG00000000002
• Aliases: None
• Description: None

Sequence

>retro_nleu_1438
ATGGCGACCGCGGTGCGCGCTGTGGGCTGCCTCCCCGTGCTGTGTAGCGGGACGGCAGGTCATTTATTGGGGAGGCAGCA
TTCCCTAAACACCTTACCAGCAGCTTCCATTTTGGCCTGGAAGAGTGTTCTCAGCAGTGGCCATTTGTCACCACTGGGAA
CCAGAGACATCCATCCCTACGCCAGCTTGAGCCGTGCACTGCAGATACAATGCTGTATTTCTTCTCCCAGTCACCTGATG
AGCCAGCAGTATAGACCATATAGTTTCTTCACTAAATTGACTGCAGATGAGCTGTGGAAAGGCGCTTTAGCGGAGACTGG
TGCTGGAGCAAGAAAAGGAAGAGGCAAAAGAACTAAAAAGAAGAGAAGAAAGGATCTGAACAGGGGTCAGATCATTGGTG
AAGGGCGTTATGGTTTTCTATGGCCTGGACTGAATGTCCCTCTTACGAAAAATGGAGCAGTGCAGACCATTGCCCAAAGA
AGCAAGGAGGAGCAGGAGAAGGTGGAGGCAGACATGATCCAGCAGAGAGAAGAGTGGGACCGAAAGAGGAAGATGAAGGT
TACACGGGAGCGAGGATGGAGTGGAAACTCATGGGGAGGCATCAGTCTTGGCCCCCCTGATCCTGGTCCCAATGGAGAAA
CATATGAGGATTTTGATACCAGGATACTTGAGGTAAGAAATGTTTTCACTATGACAGCGAAAGACGGAAGAAAGAAATCG
ATCCGTGCCCTGGTGGCTGTGGGGAATGGAAAAGGAGCTGCAGGT

Alignment

ORF - retro_nleu_1438 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.76 %
• Parental protein coverage: 87.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATAVRAVGCLPVLCSRTAGHLLGRQRSLNTLPAASILAWKSVLSSGHLSPLGTRDTHPYASLSRALQTQ
          MATAVRAVGCLPVLCS.TAGHLLGRQ.SLNTLPAASILAWKSVLSSGHLSPLGTRD.HPYASLSRALQ.Q
Retrocopy MATAVRAVGCLPVLCSGTAGHLLGRQHSLNTLPAASILAWKSVLSSGHLSPLGTRDIHPYASLSRALQIQ

Parental  CRISSPSHLMNQQYRPYSFFTKLTADELWKGALAETGAGARKGRGKRTKKKRRKDLNRGQIIGEGRYGFL
          C.ISSPSHLM.QQYRPYSFFTKLTADELWKGALAETGAG...............DLNRGQIIGEGRYGFL
Retrocopy CCISSPSHLMSQQYRPYSFFTKLTADELWKGALAETGAGXXXXXXXXXXXXXXXDLNRGQIIGEGRYGFL

Parental  WPGLNVPLTKNGAVQTIAQRSKEEQEKVEADMIQQREEWDRKRKMKVTRERGWSGNSWGGISLGPPDPGP
          WPGLNVPLTKNGAVQTIAQRSKEEQEKVEADMIQQREEWDRKRKMKVTRERGWSGNSWGGISLGPPDPGP
Retrocopy WPGLNVPLTKNGAVQTIAQRSKEEQEKVEADMIQQREEWDRKRKMKVTRERGWSGNSWGGISLGPPDPGP

Parental  NGETYEDFDTRILEVRNVFTMTAKDGRKKSIRALVAVGNGKGAAG
          NGETYEDFDTRILEVRNVFTMTAKDGRKKSIRALVAVGNGKGAAG
Retrocopy NGETYEDFDTRILEVRNVFTMTAKDGRKKSIRALVAVGNGKGAAG

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_1438 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
Callithrix jacchus	ENSCJAG00000018942	1 retrocopy	retro_cjac_2129,
Homo sapiens	ENSG00000144029	1 retrocopy	retro_hsap_3116,
Gorilla gorilla	ENSGGOG00000001750	1 retrocopy	retro_ggor_2139,
Microcebus murinus	ENSMICG00000007318	1 retrocopy	retro_mmur_565,
Macaca mulatta	ENSMMUG00000016239	2 retrocopies	retro_mmul_2110, retro_mmul_2251,
Mus musculus	ENSMUSG00000027374	1 retrocopy	retro_mmus_2014,
Nomascus leucogenys	ENSNLEG00000000002	1 retrocopy	retro_nleu_1438 ,
Pongo abelii	ENSPPYG00000012051	1 retrocopy	retro_pabe_2574,
Pan troglodytes	ENSPTRG00000012209	1 retrocopy	retro_ptro_2107,