RetrogeneDB ID: retro_nleu_1981

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397320.1:13516122..13517457(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDC14B
• Ensembl ID: ENSNLEG00000016822
• Aliases: None
• Description: None

Sequence

>retro_nleu_1981
AAAAGCGAGAGGCGGTCGAGCTGGGTCGCGGCCACCTGCTCGCCGCGCTGCTCTTTGACCTCGCCGAGTGTAAAGAAGAT
CCGCAGCCCCACGCAGCAGGACCCGCGCCACCGGGACCCCCAGGACGACGTGTACCTGGACATCACAGATCGCCTTCGTT
TTGCCATTCTCTACAGCAGACCAAAGAGTGCATCCAATGTACATTATTTCAGCATAGATACTGAACTCGAATAAGAGAAT
TTCTCTGAAGACTTTGGACCACTCAATCTGGCAATGGTTTACAGATATTGTTGCAAGATAAATAAGAAATTAAAGTCCAT
TACAATGTTAAGGAAGAAAATTGTTCATTTTACTGGCTCTGATCAGAGAAAACAAGCAAATGCTGCCTTCCTTGTTGGAT
GCTACATGGTTATATATTTGGGAAGAACCCCAGAAGAAGCATATAGAACATTAATTTTTGGAGATACATCCTATATTCCT
TTCAGAGATGCTGCCTATGGAAGCTGCAATTTCTACATTACACTTCTTGACTGTTTTCATGCAGTAAAGAAGGCAATGCA
GTATGGCTTCCTTAATTTCAACTCATTTAACCTTGATGAATATGAACACTATGAAAAAGCAGAAAACGGAGATTTAAATT
GGATAATACCAGACAGATTTATTGCCTTCTGTGGACCTCATTCAAGAGCCAGACTTGAAAGTGGTTACCACCAACATTCT
CCCGAGACTTATATTCAATATTTTAAGAATCGCAATGTTACTACCATTATTCATCTGAATAAAAGGATGTATGATGCCAA
ATGCTTTACAGATGCTGGCTTCGATCACCATGATCTTTTCTTTGCTGATGGCAGCAGCCCTACTGATGCCATTGTCAAAG
GATTTCTGGATATCTGTGAAAATGCTGAGGGTGCCATTGCAGTACATTGTAAAGCCGGCCTTGGTCGCACGGGCACTCTG
ATAGCCTGCTACGTCATGAAGCATTACAGGATGACAGCAGCCGAGACCATTGCGTGGGTAAGGATCTGCAGACCTGGCTT
GGCGATTGGGCCTCAGCAGCAGTTTTTGGTGATGAAGCAAACAAGCCTCTGGCTGGAAGGGGACTATTTTCGTCAGAAGT
TAAAGGGGCAGGAGAATGGACAACACAGAGCAGCCTTCCCCAAACTTCACTCTGGTGTTGATGACATTTCCATAAATGGG
GTCGAGAATCAAGACCAGCAAGAACCCAAACCTTACAGTGATGATGACAAAATCAATGGAGTGACACAAGGTGATAGACT
TCGGGCCCTGAAAAGCCGAAGACAATCAAAAACAATGCCATTCTTCTTAAATGTC

Alignment

ORF - retro_nleu_1981 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.13 %
• Parental protein coverage: 90.08 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ESERWSSWAAAPCSRRCSSTSPGVKKIRSSTQQDPRRRDPQDNVYLDITDRLCFAILYSRPKSASNVHYF
          .SER.SSW.AA.CS.RCS.TSP.VKKIRS.TQQDPR.RDPQD.VYLDITDRL.FAILYSRPKSASNVHYF
Retrocopy KSERRSSWVAATCSPRCSLTSPSVKKIRSPTQQDPRHRDPQDDVYLDITDRLRFAILYSRPKSASNVHYF

Parental  SIDNELEYENFYADFGPLNLAMVYRYCCKINKKLKSITMLRKKIVHFTGSDQRKQANAAFLVGCYMVIYL
          SID.ELE.ENF..DFGPLNLAMVYRYCCKINKKLKSITMLRKKIVHFTGSDQRKQANAAFLVGCYMVIYL
Retrocopy SIDTELE*ENFSEDFGPLNLAMVYRYCCKINKKLKSITMLRKKIVHFTGSDQRKQANAAFLVGCYMVIYL

Parental  GRTPEEAYRILIFGETSYIPFRDAAYGSCNFYITLLDCFHAVKKAMQYGFLNFNSFNLDEYEHYEKAENG
          GRTPEEAYR.LIFG.TSYIPFRDAAYGSCNFYITLLDCFHAVKKAMQYGFLNFNSFNLDEYEHYEKAENG
Retrocopy GRTPEEAYRTLIFGDTSYIPFRDAAYGSCNFYITLLDCFHAVKKAMQYGFLNFNSFNLDEYEHYEKAENG

Parental  DLNWIIPDRFIAFCGPHSRARLESGYHQHSPETYIQYFKNHNVTTIIRLNKRMYDAKRFTDAGFDHHDLF
          DLNWIIPDRFIAFCGPHSRARLESGYHQHSPETYIQYFKN.NVTTII.LNKRMYDAK.FTDAGFDHHDLF
Retrocopy DLNWIIPDRFIAFCGPHSRARLESGYHQHSPETYIQYFKNRNVTTIIHLNKRMYDAKCFTDAGFDHHDLF

Parental  FADGSTPTDAIVKEFLDICENAEGAIAVHCKAGLGRTGTLIACYIMKHYRMTAAETIAWVRICRPGSVIG
          FADGS.PTDAIVK.FLDICENAEGAIAVHCKAGLGRTGTLIACY.MKHYRMTAAETIAWVRICRPG..IG
Retrocopy FADGSSPTDAIVKGFLDICENAEGAIAVHCKAGLGRTGTLIACYVMKHYRMTAAETIAWVRICRPGLAIG

Parental  PQQQFLVMKQTSLWLEGDYFRQKLKGQENGQHRAAFSKLLSGVDDISINGVEHQDQQEPEPYSDDDEING
          PQQQFLVMKQTSLWLEGDYFRQKLKGQENGQHRAAF.KL.SGVDDISINGVE.QDQQEP.PYSDDD.ING
Retrocopy PQQQFLVMKQTSLWLEGDYFRQKLKGQENGQHRAAFPKLHSGVDDISINGVENQDQQEPKPYSDDDKING

Parental  VTQGDRLRALKSRRQSKTNAIPLTV
          VTQGDRLRALKSRRQSKT....L.V
Retrocopy VTQGDRLRALKSRRQSKTMPFFLNV

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_1981 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 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000081377	2 retrocopies	retro_hsap_3729, retro_hsap_3845,
Macaca mulatta	ENSMMUG00000005997	1 retrocopy	retro_mmul_1615,
Nomascus leucogenys	ENSNLEG00000016822	1 retrocopy	retro_nleu_1981 ,
Pongo abelii	ENSPPYG00000019417	1 retrocopy	retro_pabe_208,
Pan troglodytes	ENSPTRG00000021155	2 retrocopies	retro_ptro_2524, retro_ptro_2621,
Ictidomys tridecemlineatus	ENSSTOG00000012205	1 retrocopy	retro_itri_1799,
Ictidomys tridecemlineatus	ENSSTOG00000028527	3 retrocopies	retro_itri_1798, retro_itri_1821, retro_itri_1890,