RetrogeneDB ID: retro_nleu_709

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397270.1:33184525..33185431(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC104
• Ensembl ID: ENSNLEG00000009324
• Aliases: None
• Description: None

Sequence

>retro_nleu_709
GATGATGAAGAAGAAAGCAAATTGACCTATACAGAGATTCATCAGGAATACAAAGAACTAGTTGAAAAGCTGTTAGAAGG
TTACCTCAAAGAAATTGGAATTAATGAAGATCAGTTTCAAGAAGCATGCACTTCTCCTCTTGCAAAGACCCATATATCAC
AGGCCATTTTGCAACCTGTGTTGGCAGCAGAAGATTTTCCTATCTTTAAAGCAATGATGGTCCAGAAAAACATTGAAATG
CAGCTGCAAGCCATTCGAATAATTCAAGAGACAAATGGTGTATTACCTTACTGCTTAACCGATGGCTCTGATGTGGTCAG
TGACCTTGAACACAAAGAGATGAAAATCCTGAGGGAAGTTCTTAGAAAATCAAAAGAGGAATATGACCAGGAAAAAGAAA
GGAACAGGAAAAAACAGTTATCAGAGGCTAAAACAGAAGAGCCCACAGTACATTCCAGTGAAGCTGCAATAATGAAAAAT
TCCCAAGGGGATGCTGAACATTTTACACACCCACCCTCAGAAGTTAAAGTGCATTTTGCTAATCAGTCAATAGAACCTTT
GGGAAGAAAAGTGGAAAGGTCTGAAATTTCCTCCCTCCCACAAAAAGGCCTGAAAATTCCTGGCTTAGAGCATGCGAGCA
TTCAAGGACCAATAGCAAATTTATCAGTGCTTGGAACAGAAGAACTCCGGCAACGAGAAGACTATCTCAAGCAGAAGAGA
GATAAGTTGATGTCCATGAGAAAGGATATGAGGACTAAACTGATACAAAATATGGAGCAGAAAGGAAAACCCACTGGGGA
GGTAGAGGAAATGACAGAGAAACCAGAAATGACAGCAGAGGAGAAGCAAACATTACTAAAGAGGAGATTGCTTGCAGAGA
AACTCAAAGAAGTTATTAATAAGAAG

Alignment

ORF - retro_nleu_709 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.71 %
• Parental protein coverage: 82.34 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DDEEESKLTYTEIHQEYKELVEKLLEGYLKEIGINEDQFQEACTSPLAKTHISQAILQPVLAAEDFTIFK
          DDEEESKLTYTEIHQEYKELVEKLLEGYLKEIGINEDQFQEACTSPLAKTHISQAILQPVLAAEDF.IFK
Retrocopy DDEEESKLTYTEIHQEYKELVEKLLEGYLKEIGINEDQFQEACTSPLAKTHISQAILQPVLAAEDFPIFK

Parental  AMMVQKNIEMQLQAIRIIQERNGVLPYCLTYGSDVVSDLEHEEMKILREVLRKSKEEYDQEEERNRKKQL
          AMMVQKNIEMQLQAIRIIQE.NGVLPYCLT.GSDVVSDLEH.EMKILREVLRKSKEEYDQE.ERNRKKQL
Retrocopy AMMVQKNIEMQLQAIRIIQETNGVLPYCLTDGSDVVSDLEHKEMKILREVLRKSKEEYDQEKERNRKKQL

Parental  SEAKTEEPTVHSSEAAIMNNSQGDAEHFAHPPSEIKLHFANQSIEPLGRKVERSETSSLSQKGLKIPGLE
          SEAKTEEPTVHSSEAAIM.NSQGDAEHF.HPPSE.K.HFANQSIEPLGRKVERSE.SSL.QKGLKIPGLE
Retrocopy SEAKTEEPTVHSSEAAIMKNSQGDAEHFTHPPSEVKVHFANQSIEPLGRKVERSEISSLPQKGLKIPGLE

Parental  HASIEGPIANLSVLGTEELRQREDYLKQKRDKLMSMRKDMRTKLIQNMEQKGKPTGEVEEMTEKPEMTAE
          HASI.GPIANLSVLGTEELRQREDYLKQKRDKLMSMRKDMRTKLIQNMEQKGKPTGEVEEMTEKPEMTAE
Retrocopy HASIQGPIANLSVLGTEELRQREDYLKQKRDKLMSMRKDMRTKLIQNMEQKGKPTGEVEEMTEKPEMTAE

Parental  EKQTLLKRRLLAEKLKEEVINKK
          EKQTLLKRRLLAEKLKE.VINKK
Retrocopy EKQTLLKRRLLAEKLKE-VINKK

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_709 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000003869	1 retrocopy	retro_mluc_525,
Nomascus leucogenys	ENSNLEG00000009324	1 retrocopy	retro_nleu_709 ,