RetrogeneDB ID: retro_nleu_1183

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397284.1:4994550..4996165(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WWP1
• Ensembl ID: ENSNLEG00000001517
• Aliases: None
• Description: E3 ubiquitin-protein ligase [Source:UniProtKB/TrEMBL;Acc:G1QM19]

Sequence

>retro_nleu_1183
AAAAAGAACTGGTTCGGAACAGCAGTAGTTGTAGATGGAGAAGTTAGGAAAACAGCAAAATCCAGTAGTTCTTCTAATCC
AAAATGGGATGAACAGCTAACTGTAAATGTTACGCCACAGACTACATTGGAATTTCGAGTTTGGAGCCATCACACTTTAA
AAGCAGATGCTTTATTAGGAAAAGCAACCACAGATTTGAAACAAGCTCTGTTGATACACAATAGAAAATTGGAAAGAGTG
AAAAAACAATTAAAACTTTCCTTGGAAAACAGGAATGGCAAAGCACTATTGACAGTTGTGCTTGACGGATTTGGTGATTG
AGCAAGAAAATGTAACAAACTGCAGCTCATCTCCAACCATAGAAATACAGCAAAATGGTGATGCCTTACATGAAAATGGA
GAGCCTTCAGCAAGGACAACTGCCAGGTTGGCTGTTGAAGGCACGAATGGAATAGATAATCATGTACCTACAAGCACTCT
AGTCCAAAACTCATGCTGCTTGTGTGTAGTTAATGGAGACAACATACCTTCATCTCCATCTCAGGTTGCTGCCAGACCCA
AAAATACACCAGCTGCAAAACCACTCACATCTGAGCCTGCCGATGACACTGTTAATGGAGAATCATCTTCATTTGCACCA
ACTGATAATGCTTCTCTCACGGGTATTCCAGTAGTGTCTGAAGAAAATGCCTTGTCTCCAAATTGCACTAGTGCTACTGT
TGAAGATCCTCCAGTTCAAGAAATACTGACTTCCTCAGAAAACAATGAATGTATTCCTTCTACCAGTGCAGAATTGGGAT
CTGAATCTAGAAGTATATTAGACCCTGACGTCTCTAATTCTGCAAGTAGTTCTGCTTTTGAAGCAGCCAAATCAAGACAG
CCAGATGGGTGTATGGATCCGGTATAGCAGGAGTCTGGGAATGCCAACACGGAAACCTTGCCATCAGGGTGAGAACGAAG
AAAAGATCCTCATGGTAGAACCTATTATGTGGATCATAATACTCCAACTACCACATGGGAGAGACCACAACCTTTACCCT
CAGGTTGGGAAAGAAGAGTTGATGATCATGGAAGAGTTTATTATGTGTATCATAATACCGGAACAACAATGTGGCAGTGG
CCTACCATGGAATCGGTTCGAAATTTTGAACAGTGGCAATCTCAGCGGAACCAACTGCAGGGAACTATGCAACAGTTTAA
CCAATGATACCTCTATTCGGCTTCAATGTTAGCTGCAGAAAATCACCCTTATGGACCTTTGCCACCAGGCTGGGAAAAAA
GAGTGGATTCAACAGTCAGGGTTTACTTTGTGAATCATAACACAAAAACAACCCAGTGGGAAGATCCAAGAACTCAAGGC
TTACAGAATGAAGAAGCTCTGCCAGAAGGCTGGGAAATTAGATATACTCGTGAAGGTGTAAGGTACTTTGTTAATCATAA
CGCAAGAACAACAACATTCAAAGATCCTCGCAACGGGAAGTCATCTGTAACCAAAGGTGGTCCACAAATTGCTTTTGAAC
ACAGCTTTAGGTGGAAACTTGCTCACTTCCATTATTTGTGCCAGTCTAATGCACTACCCAGTCATGTAAAGATCAATGTG
TCCCGGCAGACATTG

Alignment

ORF - retro_nleu_1183 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.84 %
• Parental protein coverage: 59.11 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KKNWFGTAIYTEVVVDGEIRKTAKSSSSSNPKWDEQLTVNVTPQTTLEFRVWSHHTLKADALLGKATIDL
          KKNWFGTA....VVVDGE.RKTAKSSSSSNPKWDEQLTVNVTPQTTLEFRVWSHHTLKADALLGKAT.DL
Retrocopy KKNWFGTA----VVVDGEVRKTAKSSSSSNPKWDEQLTVNVTPQTTLEFRVWSHHTLKADALLGKATTDL

Parental  KQALLIHNRKLERVKEQLKLSLENKNGIAQTGELTVVLDG-LVIEQENITNCSSSPTIEIQQNGDALHEN
          KQALLIHNRKLERVK.QLKLSLEN.NG.A....LTVVLDG.LVIEQEN.TNCSSSPTIEIQQNGDALHEN
Retrocopy KQALLIHNRKLERVKKQLKLSLENRNGKAL---LTVVLDG>LVIEQENVTNCSSSPTIEIQQNGDALHEN

Parental  GEPSTRTTARLAVEGTNGIDNLVPTSTLVQNSCCSYVVNGDNTPSSPSQVAARPKNTPAPKPLASEPADD
          GEPS.RTTARLAVEGTNGIDN.VPTSTLVQNSCC..VVNGDN.PSSPSQVAARPKNTPA.KPL.SEPADD
Retrocopy GEPSARTTARLAVEGTNGIDNHVPTSTLVQNSCCLCVVNGDNIPSSPSQVAARPKNTPAAKPLTSEPADD

Parental  TVNGESSSFAPTDNASVTGTPVVSEENALSPNCTSTTVEDPPVQEILTSSENNECIPSTSAELGSEARSI
          TVNGESSSFAPTDNAS.TG.PVVSEENALSPNCTS.TVEDPPVQEILTSSENNECIPSTSAELGSE.RSI
Retrocopy TVNGESSSFAPTDNASLTGIPVVSEENALSPNCTSATVEDPPVQEILTSSENNECIPSTSAELGSESRSI

Parental  LEPDTSNSRSSSAFEAAKSRQPDGCMDPVRQQSGNANTETLPSGWEQRKDPHGRTYYVDHNTRTTTWERP
          L.PD.SNS.SSSAFEAAKSRQPDGCMDPV.Q.SGNANTETLPSG.E.RKDPHGRTYYVDHNT.TTTWERP
Retrocopy LDPDVSNSASSSAFEAAKSRQPDGCMDPV*QESGNANTETLPSG*ERRKDPHGRTYYVDHNTPTTTWERP

Parental  QPLPPGWERRVDDRGRVYYVDHNTRTTTWQRPTMESVRNFEQWQSQRNQLQGAMQQFNQRYLYSASMLAA
          QPLP.GWERRVDD.GRVYYV.HNT.TT.WQ.PTMESVRNFEQWQSQRNQLQG.MQQFNQ.YLYSASMLAA
Retrocopy QPLPSGWERRVDDHGRVYYVYHNTGTTMWQWPTMESVRNFEQWQSQRNQLQGTMQQFNQ*YLYSASMLAA

Parental  ENDPYGPLPPGWEKRVDSTDRVYFVNHNTKTTQWEDPRTQGLQNEEPLPEGWEIRYTREGVRYFVDHNTR
          EN.PYGPLPPGWEKRVDST.RVYFVNHNTKTTQWEDPRTQGLQNEE.LPEGWEIRYTREGVRYFV.HN.R
Retrocopy ENHPYGPLPPGWEKRVDSTVRVYFVNHNTKTTQWEDPRTQGLQNEEALPEGWEIRYTREGVRYFVNHNAR

Parental  TTTFKDPRNGKSSVTKGGPQIAYERSFRWKLAHFRYLCQSNALPSHVKINVSRQTL
          TTTFKDPRNGKSSVTKGGPQIA.E.SFRWKLAHF.YLCQSNALPSHVKINVSRQTL
Retrocopy TTTFKDPRNGKSSVTKGGPQIAFEHSFRWKLAHFHYLCQSNALPSHVKINVSRQTL

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_1183 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000123124	1 retrocopy	retro_hsap_2680,
Macaca mulatta	ENSMMUG00000006305	1 retrocopy	retro_mmul_1418,
Mustela putorius furo	ENSMPUG00000010807	1 retrocopy	retro_mputfur_963,
Mus musculus	ENSMUSG00000041058	1 retrocopy	retro_mmus_2017,
Nomascus leucogenys	ENSNLEG00000001517	1 retrocopy	retro_nleu_1183 ,
Pongo abelii	ENSPPYG00000018724	1 retrocopy	retro_pabe_2299,
Pan troglodytes	ENSPTRG00000020395	1 retrocopy	retro_ptro_1807,