RetrogeneDB ID: retro_nleu_1076

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397280.1:207460..207895(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC107
• Ensembl ID: ENSNLEG00000004365
• Aliases: None
• Description: None

Sequence

>retro_nleu_1076
GATGAAGCTGCGGTTCTCCAAGAGGAGTCAGGCAAGAAGCAACCATTGCAGTTGGAGCAACAGCTGATCCAGACAGAGCA
GCACCTGGACAATCTGGTGGCCCAAATGGACCCCCTTTTTGAGTGTGTGACTACTCTGGCTGGAGCCCAGTAGGAGCTTC
TGAACATGCAGCTATGAACCGTGAAGCTGCTACAAGATAGCAAGCCAGATAAGGGTATGGTGGCTTCAGAACCACAGGCC
AGCATACCTTTTCCTGAGGACTTATGTATAAAGGAAGATGAGGAGGAGGCTGCTGATGGTCAGACCTGGGAGGAGCCCAT
AAACTGGAGCACAGAGACATGGAAACTAGCTACTTCCTGGCAGGTGGAGCAGGTGCTAAGGAGAAGATGCAGCAAGGCTG
TGGAAAAGGGCTCCAGTCAGCCCCAGCTGGGAAGG

Alignment

ORF - retro_nleu_1076 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.81 %
• Parental protein coverage: 57.09 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EEASKQQPVQSEQQLAQLTQQLAQTEQHLNNLMAQLDPLFERVTTLAGAQQELLNMKLRTIHELLQDSKP
          .EA...Q......Q..QL.QQL.QTEQHL.NL.AQ.DPLFE.VTTLAGAQ.ELLNM.L.T...LLQDSKP
Retrocopy DEAAVLQEESGKKQPLQLEQQLIQTEQHLDNLVAQMDPLFECVTTLAGAQ*ELLNMQL*TV-KLLQDSKP

Parental  DKDIEASEPEASRPLPEDFCLKEDEEEVGDSQAWEEPTNWSTETWNLATSWEVEWGLRRRCSQAVAKGPS
          DK...ASEP.AS.P.PED.C.KEDEEE..D.Q.WEEP.NWSTETW.LATSW.VE..LRRRCS.AV.KG.S
Retrocopy DKGMVASEPQASIPFPEDLCIKEDEEEAADGQTWEEPINWSTETWKLATSWQVEQVLRRRCSKAVEKGSS

Parental  H-SLGR
          ...LGR
Retrocopy QPQLGR

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_1076 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
Nomascus leucogenys	ENSNLEG00000004365	1 retrocopy	retro_nleu_1076 ,
Pongo abelii	ENSPPYG00000019092	1 retrocopy	retro_pabe_1151,