RetrogeneDB ID: retro_nleu_2945

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397501.1:101505..102387(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000016146
• Aliases: None
• Description: None

Sequence

>retro_nleu_2945
GCGATGGCTCTCCGGACACCTTCGGAGGGCACCCTCCCCACGGAAGCCGGAGGACGAAGACGGCGGAGGAGACTCGTCTG
GACCCCGAGCCAAAGCGAGGCCCTGCGAGCCTGCTTTGAGCGGAACCCGTACCCGGGCATCGTCACCAGAGAACGGTTGG
CCCAGGCCATCGTCGTTCCGGCGCCCAGGGTCCAGATCTGGTTGCAGAATGAGAGGTCACGCCAGCTGAGGCAGCACCGG
CGGGAATCCCGGCCCTGGCCGGGGAGACGCGGCCCGCAAGAAGGCAGGCGAAAGCGGACCCCCGTCACCCCAGCCCAGAC
CGCCCTGCTGCTCCGAGCCTTTGAGAAGGATCGCTTTTCAGGCATCGCCACCAGGGAAGGACTGGCTAGAGGGACGGGCC
TCCCGGAGTCCAGGATTCACATCTGGTTTCAGAATCGAAGGGCCAGGCACCCGGGACAGGGTGGCAGGGCGCCCGCGCAC
ACAGGCGGCCTGTGCAACTCGGCCCCCGGCGGGTGTCACCCTGCTCCCTGGTCGGTCGCCTTCGCCCACACTGGGGCGCG
AGGAACGGGGCTCCCCTCACCCCACATGTCCTGCGCTCCTGGGGCTCTCCCACAGGGGGCTTTCGTGAGCCAGGGAGCAA
GGGCCGTGCACCTGCTCCAGCCCAGCCAGTCTGCGCCAGCAGAAGGGATCTCCCAACCTGCCCCGGCAGGCGGGGATTTT
GCCTACGCCGCCCTGGCTCCTCCGGAAGGGGCGCTCGCCCACCCTCAGACTCCTCGGTGGCCTCCGCACCCAAGCAAATG
CCAGGAGGACCGGGACCAGCAGCGCGACGGCCTGCCGGGCCCTTGCGCCGTGGGACAGCCAGGGCCCGCTCAAGCCGGGC
CA

Alignment

ORF - retro_nleu_2945 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.58 %
• Parental protein coverage: 62.42 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AMALPTPSDGTLPAEARGRGRRRRLVWTPSQSEALRACFERNPYPGIATRERLAQAIGAPEPRVQIWFQN
          AMAL.TPS.GTLP.EA.GR.RRRRLVWTPSQSEALRACFERNPYPGI.TRERLAQAI..P.PRVQIW.QN
Retrocopy AMALRTPSEGTLPTEAGGRRRRRRLVWTPSQSEALRACFERNPYPGIVTRERLAQAIVVPAPRVQIWLQN

Parental  ERSRQLRQHRRESRPWPGRRGPPEGRRKRTSVAPSQTALLLRAFEKDRFPDIATRERLARETGLPESRIH
          ERSRQLRQHRRESRPWPGRRGP.EGRRKRT.V.P.QTALLLRAFEKDRF..IATRE.LAR.TGLPESRIH
Retrocopy ERSRQLRQHRRESRPWPGRRGPQEGRRKRTPVTPAQTALLLRAFEKDRFSGIATREGLARGTGLPESRIH

Parental  VWFQNRRARHPGQGGRAAAHAGGPCNAAPGRCHPAPWSVAPAGTSRRGRGLPSGFHPLAHGGLSQGSAAG
          .WFQNRRARHPGQGGRA.AH.GG.CN.APG.CHPAPWSVA.A.T..RG.GLPS.....A.G.L.QG....
Retrocopy IWFQNRRARHPGQGGRAPAHTGGLCNSAPGGCHPAPWSVAFAHTGARGTGLPSPHMSCAPGALPQGAFVS

Parental  KKGWSLPACGPCNAAPGGCHPAPWSVAPAGGDVAYAALAPPEGALSHPQAPRWPPHPPSKCPGDRDPQRH
          ..........P...AP......P...APAGGD.AYAALAPPEGAL.HPQ.PRWPPH.PSKC..DRD.QR.
Retrocopy QGARAVHLLQPSQSAPAEGISQP---APAGGDFAYAALAPPEGALAHPQTPRWPPH-PSKCQEDRDQQRD

Parental  GLPGLPAQAGPQGQGVLAP
          GLPG.P...G..G.....P
Retrocopy GLPG-PCAVGQPGPAQAGP

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_2945 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 3 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006577	2 retrocopies	retro_chof_1700, retro_chof_2634,
Nomascus leucogenys	ENSNLEG00000010886	3 retrocopies	retro_nleu_1935, retro_nleu_2214, retro_nleu_568,
Nomascus leucogenys	ENSNLEG00000016146	2 retrocopies	retro_nleu_2945 , retro_nleu_3091,