RetrogeneDB ID: retro_nleu_1747

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397307.1:3159362..3159926(+)
• Located in intron of: ENSNLEG00000011659

Retrocopy information

• Ensembl ID: ENSNLEG00000011674
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PIGH
• Ensembl ID: ENSNLEG00000000739
• Aliases: None
• Description: None

Sequence

>retro_nleu_1747
ATGGAGGATGAGCGGAGCTTTTCGGATATCTGCGGCGGCCGCCTGGCCCTGCAGCGCCGCTACTACTCCCCCTCCTGCCG
GGAATTCTGCCTCAGCTGCCCTCGGCTCTCGCTGCGTTCGCTCACCGCTGTCACCTGCACGGTGTAGCTGGCAGCCTACG
GACTCTTCACCCTCTGCGAGAACAGCATGATCCTCTCTGCTGCCATCTTCATCAGCCTCTTAGGTCTGCTTGGTTATCTC
CATTTTGTGAAGATTGATCAGGAGACTCTCTTAATCATTGATTCCCTTGGCATTCAGATGACTTAATCTTATGCTTCAGG
CAAAGAAAGCAATACCTTCATAGAAATGGGCAAGGTCAAGGATATTGTCATCAATGAGGCTGTTTACATGCAGAAGGTGA
TTTACTACCTCTGCATCTTATTGAAGGATCCAGTGGAACCACATGGGATATCCCAAGTAGTACCCGTCTTCCAGAGCGCC
AAGCCCCAGCTGGACTGCTTGACTGAAGTATACAGGAGCTGCCAGGAGATCCTGGCACACCAGAAAGCCACATCAACAAG
CCCA

Alignment

ORF - retro_nleu_1747 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.74 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEDERSFSDIRGGRLALQRRYYSPSCREFCLSCPRLSLRSLTAVTCTVWLAAYGLFTLCENSMILSAAIF
          MEDERSFSDI.GGRLALQRRYYSPSCREFCLSCPRLSLRSLTAVTCTV.LAAYGLFTLCENSMILSAAIF
Retrocopy MEDERSFSDICGGRLALQRRYYSPSCREFCLSCPRLSLRSLTAVTCTV*LAAYGLFTLCENSMILSAAIF

Parental  ITLLGLLGYLHFVKIDQETLLIIDSLGIQMTSSYASGKESTTFIEMGKVKDIVINEAIYMQKVIYYLCIL
          I.LLGLLGYLHFVKIDQETLLIIDSLGIQMT.SYASGKES.TFIEMGKVKDIVINEA.YMQKVIYYLCIL
Retrocopy ISLLGLLGYLHFVKIDQETLLIIDSLGIQMT*SYASGKESNTFIEMGKVKDIVINEAVYMQKVIYYLCIL

Parental  LKDPVEPHGISQVVPVFQSAKPRLDCLIEVYRSCQEILAHQKATSTSP
          LKDPVEPHGISQVVPVFQSAKP.LDCL.EVYRSCQEILAHQKATSTSP
Retrocopy LKDPVEPHGISQVVPVFQSAKPQLDCLTEVYRSCQEILAHQKATSTSP

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_1747 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000003328	1 retrocopy	retro_cpor_815,
Echinops telfairi	ENSETEG00000008623	1 retrocopy	retro_etel_844,
Homo sapiens	ENSG00000100564	1 retrocopy	retro_hsap_1506,
Gorilla gorilla	ENSGGOG00000001507	1 retrocopy	retro_ggor_1155,
Macropus eugenii	ENSMEUG00000011325	1 retrocopy	retro_meug_2130,
Myotis lucifugus	ENSMLUG00000004467	1 retrocopy	retro_mluc_910,
Nomascus leucogenys	ENSNLEG00000000739	1 retrocopy	retro_nleu_1747 ,
Pongo abelii	ENSPPYG00000005925	1 retrocopy	retro_pabe_1255,
Pan troglodytes	ENSPTRG00000006466	1 retrocopy	retro_ptro_1020,
Tarsius syrichta	ENSTSYG00000008465	1 retrocopy	retro_tsyr_1926,