RetrogeneDB ID: retro_nleu_3013

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397574.1:118482..119479(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF532
• Ensembl ID: ENSNLEG00000008341
• Aliases: None
• Description: None

Sequence

>retro_nleu_3013
AACTTGGGTGTAGACTTGCTTTTGAGCATTAAGCCTGCAACTTATAATTCAGCATATCAGAACAAAGAGGACAGCAAATC
CATGAATGGGAAAGAGAAATTGGAAAAGAAATCTCCATCTCCTTTGAAAAAAATCAATGGAAACCAAGAAAGTGGCCAGT
CCTGGGTGGACGTGTTGGTAGTGTGACCGCCTGTTCATGCAGAGAGATGTGTACATATCCCACGTGAGGAAGGAGCATGG
GAAGCAAATGAATAAACACCCCTGCCGCCAGCGTGACAAGCCTTTCAGCTTGTCCCACAGCCTGTGCTGGCACAACCGGA
TCAAGCACAAAGGCATCAGGAAAGTGTATGCCTGCTCACACTGCCCAGACTCCAGAGGTACCTTTACCAAACGGTTGATG
CTGGAGAAGCATGTCCAGCTGATGCATGGCATCAGCGACCCTGACCTGAAAGAAATGACAGACACCACCAATGAGGAGGA
AACAGAAATAAAAGAAGATGCCAAGGTCCCCAGCCCCAAGTGGAAGTTGAAAGAATTGGTTCTGGAGTTCAGGCCTCCCA
GAGGAGCAATCACTCAACCACTGAAAAAGCTGAAAATCAATGTTTTTAAGGTTCACAAGTGTGCCGTGTGTTGCTTCACC
ACCGAAAACCTGCTGCAGTTCCACGAACACATCCCTCAGCACAAATCGGATAGTTCTTCCTACCAGTGCCGGGAGTGTGG
CCTCTGCTATATGTCTCACGTCTCTCTGTCCAGGCACCTCTTTGTTGTACATAAGTTAAAGGAACCTCAGCCAGTGTTCA
AGCAAAGTGGGGCTAGGGAAGATAACCAACAGAAGAACAAACCCAGCCATGAGGACGAATCTCCCAATGGCGTCATGTCA
GACAGAAAGTGCAAAGTGTGCGCAAAAACTTTTGAAACTGAAGCTGCTTTAAACACTCACATGCAGACACATGGTATGGC
CTTCATCAAATCCAAAAGGATGAGCTCAGATGAGAAA

Alignment

ORF - retro_nleu_3013 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.29 %
• Parental protein coverage: 64.57 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NLGINLPLSIKPATQNSANQNKEDTKSMNGKEKLEKKSPSPVKK-SMETKKVASPGWTCWECDRLFMQRD
          NLG..L.LSIKPAT.NSA.QNKED.KSMNGKEKLEKKSPSP.KK.SMETKKVASPGWTCW.CDRLFMQRD
Retrocopy NLGVDLLLSIKPATYNSAYQNKEDSKSMNGKEKLEKKSPSPLKK>SMETKKVASPGWTCW*CDRLFMQRD

Parental  VYISHVRKEHGKQMKKHPCRQCDKSFSSSHSLCRHNRIKHKGIRKV----HCPDSRRTFTKRLMLEKHVQ
          VYISHVRKEHGKQM.KHPCRQ.DK.FS.SHSLC.HNRIKHKGIRKV....HCPDSR.TFTKRLMLEKHVQ
Retrocopy VYISHVRKEHGKQMNKHPCRQRDKPFSLSHSLCWHNRIKHKGIRKVYACSHCPDSRGTFTKRLMLEKHVQ

Parental  LMHGIKDPDLKEMTDATNAEETEIKEDTKVPSPKRKLEEPVLEFRPPRGAITQPLKKLKINVFKVHKCAV
          LMHGI.DPDLKEMTD.TN.EETEIKED.KVPSPK.KL.E.VLEFRPPRGAITQPLKKLKINVFKVHKCAV
Retrocopy LMHGISDPDLKEMTDTTNEEETEIKEDAKVPSPKWKLKELVLEFRPPRGAITQPLKKLKINVFKVHKCAV

Parental  CGFTTENLLQFHEHIPQHKSDGSSYQCRECGLCYTSHVSLSRHLFIVHKLKEPQPVSKQNGAGEDNQQEN
          C.FTTENLLQFHEHIPQHKSD.SSYQCRECGLCY.SHVSLSRHLF.VHKLKEPQPV.KQ.GA.EDNQQ.N
Retrocopy CCFTTENLLQFHEHIPQHKSDSSSYQCRECGLCYMSHVSLSRHLFVVHKLKEPQPVFKQSGAREDNQQKN

Parental  KPSHEDESPDGAVSDRKCKVCAKTFETEAALNTHMRTHGMAFIKSKRMSSAEK
          KPSHEDESP.G..SDRKCKVCAKTFETEAALNTHM.THGMAFIKSKRMSS.EK
Retrocopy KPSHEDESPNGVMSDRKCKVCAKTFETEAALNTHMQTHGMAFIKSKRMSSDEK

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_3013 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 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000008341	2 retrocopies	retro_nleu_3013 , retro_nleu_581,
Vicugna pacos	ENSVPAG00000008243	2 retrocopies	retro_vpac_454, retro_vpac_635,