RetrogeneDB ID: retro_nleu_2352

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397347.1:4168229..4169253(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: STK24
• Ensembl ID: ENSNLEG00000007854
• Aliases: None
• Description: None

Sequence

>retro_nleu_2352
ATGAAAGATACAAAAGTATGGATAATAATGGAATATCCTGATGGAGGCTCCACACTAGATCTGTTAGAACCTGGCCCGTT
AGATGAAACCCAGATCACTACTATATTAAGAGAAATACTGAAAGGACTTGATTACCTCCATTCGGAGAAGAAAATCCATA
GAGACGTTAAAGTGGCCAACGTCCTGCTGTCTGAGCACTGCGAGGTGAAGCTGGCGGACTTTGGCATGGCCAGCCAGCTG
ACAGACACCTAGACCAAAAGGAAAACTTTCATGGGCACACCGTTCTGGATAGCACCCGAGGTCATCAAACAGTCGGCCTG
TGACTCGAAGGCAGACATCTGTTCCCTGGGCATAACAACTATTTAACTTGCAAAAGGGGAACCACCTCATTCCAAGCTGC
ATCCCATGAAAGTTTTATTCCTCATTCCAAAGAACAACCCACCAACGTTGGAAGAAAACTACAGTAAACCCCTCAAGGAG
TATGTGGAAGCCTGTTTGAATGAAGAGCCGAGCTTTAGACCCACTGCTAAGGAGTTATTGAAGCACAAGTTTATACTACG
CAAAGCAAAGAAAACTTCCTACTTGACCGAGCTCATAGACAGGTATAAGAGATGGAAGGCAAGGCAGAGCCACGAAGACT
CGAGCTCCGAGGATTCCAACTCGGAAGCAGATGGCCAAGCCTCAGTGGGGCAGCGATTCTGGGGACTGGATCTTCACAAT
CCGAGAAAAAGATCCCAAGAATCTTGAGAATGGAGCTCTTCAGCCATCGGATGTAGACAGAAATAAGATGAAAGACATCC
CAAAGAGGGCTTTCTCTCAGTGTTTATCTACAATTATTTTCCCTCTGTTTGCAGAGTTGAAGAAGAACCAGGCGTGCGGA
GGGAACTTGGGGTCCACTGAAGAGCTGCGAGGGGCCATCTACCCGGTGGAGGAGGTGTGCCCCGGCATCTCCGACACCAT
GGTGGCCCGGCTGGTGCAGCGGCTCCACAGATATTCTCCAAGTGGTGGAGAAACTTCATCCCAC

Alignment

ORF - retro_nleu_2352 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.59 %
• Parental protein coverage: 79.35 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LKDTKLWIIMEYLGGGSALDLLEPGPLDETQIATILREILKGLDYLHSEKKIHRDIKAANVLLSEHGEVK
          .KDTK.WIIMEY..GGS.LDLLEPGPLDETQI.TILREILKGLDYLHSEKKIHRD.K.ANVLLSEH.EVK
Retrocopy MKDTKVWIIMEYPDGGSTLDLLEPGPLDETQITTILREILKGLDYLHSEKKIHRDVKVANVLLSEHCEVK

Parental  LADFGVAGQLTDTQIKRNTFVGTPFWMAPEVIKQSAYDSKADIWSLGITAIELARGEPPHSELHPMKVLF
          LADFG.A.QLTDT..KR.TF.GTPFW.APEVIKQSA.DSKADI.SLGIT.I.LA.GEPPHS.LHPMKVLF
Retrocopy LADFGMASQLTDT*TKRKTFMGTPFWIAPEVIKQSACDSKADICSLGITTI*LAKGEPPHSKLHPMKVLF

Parental  LIPKNNPPTLEGNYSKPLKEFVEACLNKEPSFRPTAKELLKHKFILRNAKKTSYLTELIDRYKRWKAEQS
          LIPKNNPPTLE.NYSKPLKE.VEACLN.EPSFRPTAKELLKHKFILR.AKKTSYLTELIDRYKRWKA.QS
Retrocopy LIPKNNPPTLEENYSKPLKEYVEACLNEEPSFRPTAKELLKHKFILRKAKKTSYLTELIDRYKRWKARQS

Parental  HDDSSSEDSDAETDGQAS-GGSDSGDWIFTIREKDPKNLENGALQPSDLDRNKMKDIPKRPFSQCLSTII
          H.DSSSEDS..E.DGQAS..GSDSGDWIFTIREKDPKNLENGALQPSD.DRNKMKDIPKR.FSQCLSTII
Retrocopy HEDSSSEDSNSEADGQAS>WGSDSGDWIFTIREKDPKNLENGALQPSDVDRNKMKDIPKRAFSQCLSTII

Parental  SPLFAELKEKSQACGGNLGSIEELRGAIYLAEEACPGISDTMVAQLVQRLQRYSLSGGGTSSH
          .PLFAELK.K.QACGGNLGS.EELRGAIY..EE.CPGISDTMVA.LVQRL.RYS.SGG.TSSH
Retrocopy FPLFAELK-KNQACGGNLGSTEELRGAIYPVEEVCPGISDTMVARLVQRLHRYSPSGGETSSH

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_2352 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.

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004508	1 retrocopy	retro_cjac_4221,
Cavia porcellus	ENSCPOG00000006610	1 retrocopy	retro_cpor_490,
Homo sapiens	ENSG00000102572	1 retrocopy	retro_hsap_4907,
Gorilla gorilla	ENSGGOG00000001983	1 retrocopy	retro_ggor_3065,
Macaca mulatta	ENSMMUG00000009173	1 retrocopy	retro_mmul_2640,
Nomascus leucogenys	ENSNLEG00000007854	1 retrocopy	retro_nleu_2352 ,