RetrogeneDB ID: retro_nleu_471

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397265.1:35524412..35525143(-)
• Located in intron of: ENSNLEG00000014964

Retrocopy information

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

Parental gene information

• Parental gene symbol: METTL21A
• Ensembl ID: ENSNLEG00000007129
• Aliases: None
• Description: None

Sequence

>retro_nleu_471
GGGCGGGGAAAGCGGAGCTCAAGCCCCACGTGGGACCGCCTCCCGAGCCATCTGAGCAGAGGGTGGGGTGCAGGCGGAAT
GGCCCTCGTGCCCTATGAGGAGACCACGGAATTTGGGTTGCAGAAATTCCACAAGCCTCTTGCAACGTTTTCCTTTGCAA
ACCACACGATCCAGATCCGGCAGGACTGGAGACACCTGGGAGTCGCAGCGGTGGTTTGGGATGCGGCCATCGTTCTTTCC
ACGTATCTGGAGATGGGAGCTGTGGAGCTCAGGGACAGCTCTGCCGTGGAGCTGGGTGCTGGCACGGAGCTGGTGGGCAT
AGTGGCTGCCCTGCTGGGTGCTCATGTGACTATCACGGATCGAAAAGTAGCATTAGAATTTCTTAAATCAAACGTTCAAG
CCAACTAACCTCCTCAAATCCAACCCAAAACTGTTGTTAAGGAGCTGACTTGGGGACAAAATTTGGGGAGTTTTTCTCCT
GGAGAATTTGACCTGATACTTGGAGCTGATATCATATATTTAGAAGAAACATTCACAGATCTTCTTCAAACACTGGAACA
TCTCTGTAGCAATCACTGTGTGATTCTTTTAGCATGCCGAATTCGCTATGAACGGGATGACACTTCTTAGCAATGCTGGA
GAGGCAATTTACTGTGAGAAAGGTTCACTATGATCCTGAAAAAGATGTACATATTTACGAAGCACAGAAGAGAAACCAGA
TGGAGGACTTA

Alignment

ORF - retro_nleu_471 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.47 %
• Parental protein coverage: 90.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GRGKRSARPTRDRLPSRLSRGRGAGGMALVPYEETTEFGLQKFHKPLATFSFANHTIQIRQNWRHLGVAA
          GRGKRS..PT.DRLPS.LSRG.GAGGMALVPYEETTEFGLQKFHKPLATFSFANHTIQIRQ.WRHLGVAA
Retrocopy GRGKRSSSPTWDRLPSHLSRGWGAGGMALVPYEETTEFGLQKFHKPLATFSFANHTIQIRQDWRHLGVAA

Parental  VVWDAAIVLSTYLEMGAVELRGRSAVELGAGTGLVGIVAALLGAHVTITDRKVALEFLKSNVQANLPPHI
          VVWDAAIVLSTYLEMGAVELR..SAVELGAGT.LVGIVAALLGAHVTITDRKVALEFLKSNVQAN.PP.I
Retrocopy VVWDAAIVLSTYLEMGAVELRDSSAVELGAGTELVGIVAALLGAHVTITDRKVALEFLKSNVQAN*PPQI

Parental  QPKTVVKELTWGQNLGSFSPGEFDLILGADIIYLEETFTDLLQTLEHLCSNHSVILLACRIRYERDN-NF
          QPKTVVKELTWGQNLGSFSPGEFDLILGADIIYLEETFTDLLQTLEHLCSNH.VILLACRIRYERD...F
Retrocopy QPKTVVKELTWGQNLGSFSPGEFDLILGADIIYLEETFTDLLQTLEHLCSNHCVILLACRIRYERDD<HF

Parental  LAMLERQFTVRKVHYDPEKDVHIYEAQKRNQKEDL
          LAMLERQFTVRKVHYDPEKDVHIYEAQKRNQ.EDL
Retrocopy LAMLERQFTVRKVHYDPEKDVHIYEAQKRNQMEDL

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_471 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000144401	1 retrocopy	retro_hsap_2532,
Macaca mulatta	ENSMMUG00000022602	1 retrocopy	retro_mmul_1594,
Nomascus leucogenys	ENSNLEG00000007129	2 retrocopies	retro_nleu_2926, retro_nleu_471 ,
Pongo abelii	ENSPPYG00000013116	1 retrocopy	retro_pabe_1863,
Pan troglodytes	ENSPTRG00000012852	1 retrocopy	retro_ptro_1475,