RetrogeneDB ID: retro_nleu_1002

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397278.1:32520997..32521234(+)
• Located in intron of: ENSNLEG00000011719

Retrocopy information

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

Parental gene information

• Parental gene symbol: LYRM4
• Ensembl ID: ENSNLEG00000011472
• Aliases: None
• Description: None

Sequence

>retro_nleu_1002
AGATCTGTACTGGATGACACTGACAGAAAACAAGCATTTCAGCACCTACAATTACAGAATGTCAGGAGGATAAGAGATTC
CTTCCGAGAAAATAAAAATGTAAAGGTTCCTGTAGAAACTCAAACCCTAGAGAATAAAGCCAAAAGAGACCTTACAGTAA
TTCAGAGTAATTTGTCAACAGGTCCACATTGGCCAACTGACAAGTTCATCACTGAAAATCAAGAGAAGCCTAGGACC

Alignment

ORF - retro_nleu_1002 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.43 %
• Parental protein coverage: 85.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RAMLRESKRFSAYNY-RTYAVRRIRDAFRENKNVKDPVEIQTLVNKAKRDLGVIRRQVHIGQLYSTDKLI
          R..L....R..A........VRRIRD.FRENKNVK.PVE.QTL.NKAKRDL.VI......G....TDK.I
Retrocopy RSVLDDTDRKQAFQHLQLQNVRRIRDSFRENKNVKVPVETQTLENKAKRDLTVIQSNLSTGPHWPTDKFI

Parental  IENRDMPRT
          .EN...PRT
Retrocopy TENQEKPRT

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_1002 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.

---

Parental genes homology:

Parental genes homology involve 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000031432	1 retrocopy	retro_btau_783,
Callithrix jacchus	ENSCJAG00000021370	1 retrocopy	retro_cjac_1371,
Homo sapiens	ENSG00000214113	1 retrocopy	retro_hsap_194,
Macropus eugenii	ENSMEUG00000005958	1 retrocopy	retro_meug_656,
Myotis lucifugus	ENSMLUG00000028065	1 retrocopy	retro_mluc_394,
Mustela putorius furo	ENSMPUG00000000532	1 retrocopy	retro_mputfur_1459,
Mus musculus	ENSMUSG00000046573	1 retrocopy	retro_mmus_2374,
Nomascus leucogenys	ENSNLEG00000011472	1 retrocopy	retro_nleu_1002 ,
Rattus norvegicus	ENSRNOG00000047970	2 retrocopies	retro_rnor_1862, retro_rnor_2052,
Tursiops truncatus	ENSTTRG00000007073	1 retrocopy	retro_ttru_552,