RetrogeneDB ID: retro_nleu_627

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397268.1:34706346..34706928(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF13
• Ensembl ID: ENSNLEG00000003149
• Aliases: None
• Description: None

Sequence

>retro_nleu_627
GTGCTGCTCTCCATAGGGATGCTTATGCTGTCAGCCACACAAGTCTACAGCATCTTGGCTGTCCAGCTCTTTGCATTCTT
AAACCTACTGCCTGTAGAAGCAGACATTTTAGCATATAACTTTGAAAATACATCTCAGACATTTGATGACCTCCCTGCAA
GGTTTGGTTATAGACTTCCAGCTGAAGGTTTAAAGGGTTTTTTGATTAACTCAAAACCAGAGAATGCCTGTGAACCCATA
GTGCCTCCACCAGTAAAAAACAATTCGTCTGGCACTTTCATTGTGTTAATTAGATGACTTGATTGTAATTTTGATATGAA
GGTTTTAAATGCACAGAGAGCAGAATACAAAGCAGCCATAGTTCACAATGTTGATTCTGATGACCTCATTAGCATTGGAT
CCAATGACATTGAGGTACTAAAGAAAATTGACATTCTATCTGTCTTTATTGGTGAATCATCAGCTAACTCTCTGAAAGAT
GAATTCACATATGAAAAAGGGGGCCACCTTATTTTAGTTCCAGAATTTAGTCTTCCTTTGGAATGCTGCCTAATTTCCTT
CCTTATTATAGTGGGCATCTGT

Alignment

ORF - retro_nleu_627 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.3 %
• Parental protein coverage: 50.92 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLLSIGMLMLSATQVYTILTVQLFAFLNLLPVEADILAYNFENASQTFDDLPARFGYRLPAEGLKGFLIN
          .LLSIGMLMLSATQVY.IL.VQLFAFLNLLPVEADILAYNFEN.SQTFDDLPARFGYRLPAEGLKGFLIN
Retrocopy VLLSIGMLMLSATQVYSILAVQLFAFLNLLPVEADILAYNFENTSQTFDDLPARFGYRLPAEGLKGFLIN

Parental  SKPENACEPIVPPPVKDNSSGTFIVLIRRLDCNFDIKVLNAQRAGYKAAIVHNVDSDDLISMGSNDIEVL
          SKPENACEPIVPPPVK.NSSGTFIVLIR.LDCNFD.KVLNAQRA.YKAAIVHNVDSDDLIS.GSNDIEVL
Retrocopy SKPENACEPIVPPPVKNNSSGTFIVLIR*LDCNFDMKVLNAQRAEYKAAIVHNVDSDDLISIGSNDIEVL

Parental  KKIDIPSVFIGESSANSLKDEFTYEKGGHLILVPEFSLPLEYYLIPFLIIVGIC
          KKIDI.SVFIGESSANSLKDEFTYEKGGHLILVPEFSLPLE..LI.FLIIVGIC
Retrocopy KKIDILSVFIGESSANSLKDEFTYEKGGHLILVPEFSLPLECCLISFLIIVGIC

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_627 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010433	1 retrocopy	retro_amel_311,
Canis familiaris	ENSCAFG00000008370	1 retrocopy	retro_cfam_815,
Dasypus novemcinctus	ENSDNOG00000014687	1 retrocopy	retro_dnov_139,
Microcebus murinus	ENSMICG00000001221	1 retrocopy	retro_mmur_323,
Nomascus leucogenys	ENSNLEG00000001941	1 retrocopy	retro_nleu_100,
Nomascus leucogenys	ENSNLEG00000003149	1 retrocopy	retro_nleu_627 ,
Pongo abelii	ENSPPYG00000014202	1 retrocopy	retro_pabe_2392,