RetrogeneDB ID: retro_nleu_786

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397273.1:21403203..21404337(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000012903
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PKP2
• Ensembl ID: ENSNLEG00000016650
• Aliases: None
• Description: None

Sequence

>retro_nleu_786
GGTTTGCTGTGGAATTTGTCGTCTAATGACAAACTAAAGAATCTCATGATAACAGAAGCATTGCTTACACTGACAGAGAA
TATCATCATCCCCTTTTCTGGGTGGTCTGAAGGAGACTACCCAAAAGCAAATGGTTTGCTCGATTTTGACATATTCTACA
ACGTCACTGGATGCCTAAGAAACATGAGTTCTGCTGGCCCTGATGGAAGAAAAGCAATGAGAAGATGTGACGGACTCATT
GACTCACTGGTCCATTATGTCAGAGGAACCATTGCAGATTACCAGCCAGGTGACAAGGCCACGGAGAATTGTGTGTGCAT
TCTTCATAACCTCTCCTACCAGCTGGAGGCAGAGCTCCCGGAGAGATATTCCCAGAATATCTATATTCAAAACCGGAATA
TCCAGACTGACAACAACAAAAGTATTGGATGTTTTGGCAGTCGAAGCAGGAAAGTAAAAGAGCAATACCAGGACATGCCG
ATGCCAGAGGAAAAGAGCAACCCCAAGGGCGTGGAGTGGCTGTGGCACTCCATCGTCATAAGGATGTATCTGTGCTTGAT
CGCCAAGAGTGTCCGCAACTACACACAGGAAGCATCCTTAGGAGCTCTGCAGAACCTCACGGCCGGAAGTGGACCAATGC
CGACATCAGTGGCTCAGACAGTTGTCCAGAAGGAAAATGGCCTGCAGCACACCCGAAAGATGCTGCATGTCAGTGACCCA
AGTGTGAAAAAGACAGCCATCTCGCTGCTGAGGAATCTGTCCCAGAATCTTTCTCTGCAGAATGAAATTGCCATAGAAAC
TCTCCCTGATTTGGTTTCCATCATTCCTGACACAGTCCCAAGTACTGACCTTCTCATTGAAACTACAGCCTCTGCCTGTT
ACACATTGAACAATGTAATCCAAAACAGTTACCAGAATGCACGGGACCTTCTAAACACAGGGGGCATCCAGAAAATTATG
GCCATTAGTGCAGGCGATGCCTCTGTCTCCAACAAAGCAAGTAAAGCTGCTTCCGTCCTCCTGTATTCTCTGTGGGCACA
CACGGAACTGCATCATGCCTGCAAGAAGGCTCAGTTTAAGAAGACAAATTTTGTCAACAGCCAGACTGCCAAAGCCTACC
ACTCCCTTAAAGAC

Alignment

ORF - retro_nleu_786 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.56 %
• Parental protein coverage: 76.83 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GLLWNLSSNDKLKNLMITEALLTLTENIIIPFSGWPEGDYPKANGLLDFDIFYNVTGCLRNMSSAGPDGR
          GLLWNLSSNDKLKNLMITEALLTLTENIIIPFSGW.EGDYPKANGLLDFDIFYNVTGCLRNMSSAGPDGR
Retrocopy GLLWNLSSNDKLKNLMITEALLTLTENIIIPFSGWSEGDYPKANGLLDFDIFYNVTGCLRNMSSAGPDGR

Parental  KAMRRCDGLIDSLVHYVRGTIADYQPDDKATENCVCILHNLSYQLEAELPEKYSQNIYIQNRNIQTDNNK
          KAMRRCDGLIDSLVHYVRGTIADYQP.DKATENCVCILHNLSYQLEAELPE.YSQNIYIQNRNIQTDNNK
Retrocopy KAMRRCDGLIDSLVHYVRGTIADYQPGDKATENCVCILHNLSYQLEAELPERYSQNIYIQNRNIQTDNNK

Parental  SIGCFGSRSRKVKEQYQDMPMPEEKSNPKGVEWLWHSIVIRMYLSLIAKSVRNYTQEASLGALQNLTAGS
          SIGCFGSRSRKVKEQYQDMPMPEEKSNPKGVEWLWHSIVIRMYL.LIAKSVRNYTQEASLGALQNLTAGS
Retrocopy SIGCFGSRSRKVKEQYQDMPMPEEKSNPKGVEWLWHSIVIRMYLCLIAKSVRNYTQEASLGALQNLTAGS

Parental  GPMPTSVAQTVVQKENGLQHARKMLHVSDPSVKKTAISLLRNLSRNLSLQNEIAKETLPDLVSIIPDTVP
          GPMPTSVAQTVVQKENGLQH.RKMLHVSDPSVKKTAISLLRNLS.NLSLQNEIA.ETLPDLVSIIPDTVP
Retrocopy GPMPTSVAQTVVQKENGLQHTRKMLHVSDPSVKKTAISLLRNLSQNLSLQNEIAIETLPDLVSIIPDTVP

Parental  STDLLIETTASACYTLNNIIQNSYQNARDLLNTGGIQKIMAISAGDAYASNKASKAASVLLYSLWAHTEL
          STDLLIETTASACYTLNN.IQNSYQNARDLLNTGGIQKIMAISAGDA..SNKASKAASVLLYSLWAHTEL
Retrocopy STDLLIETTASACYTLNNVIQNSYQNARDLLNTGGIQKIMAISAGDASVSNKASKAASVLLYSLWAHTEL

Parental  HHAYKKAQFKKTDFVNSRTAKAYHSLKD
          HHA.KKAQFKKT.FVNS.TAKAYHSLKD
Retrocopy HHACKKAQFKKTNFVNSQTAKAYHSLKD

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_786 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000057294	1 retrocopy	retro_hsap_950,
Gorilla gorilla	ENSGGOG00000002106	1 retrocopy	retro_ggor_766,
Nomascus leucogenys	ENSNLEG00000016650	1 retrocopy	retro_nleu_786 ,
Pan troglodytes	ENSPTRG00000004820	1 retrocopy	retro_ptro_657,