RetrogeneDB ID: retro_nleu_468

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397265.1:27549349..27550840(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PIP5K1A
• Ensembl ID: ENSNLEG00000010130
• Aliases: None
• Description: None

Sequence

>retro_nleu_468
TCTGAGGTGCCTTATGCCTCTGGCATGCCCATCAAGAAAACAGGCCATAGAAGTGTTGCTTCCTCAGGAGAGACAACATA
TAAAAAGACAACCTCATCAGCCTTGAAAGGTGCCATCCAGTTAGGCATTACCCACACTGTGGGGAGCCTGAGTACCAAAC
CAGAGCGTGATGTCCTCATGCAAGATTTCCACATGGTGGAGAGTATCTTCTTTCCCAGTGAAGGGAGCAAACTGACCCCT
GCTCATCACTACAATGACTTTAGTTTCAAGACCTATGCACCTGTTGCCTTCCGCTACTTCCGGGAGCTATTTGGTATCCG
GCCCGATGACTACTTATATTCCCTCTGCAGTGAGCCGCTGATTGAACTCTGTAGCTCTGGAGCTAGTGGTTCCCTGTTCT
ATGTGTCCAGCGACGATGAGTTCATTATTAAGACAGTCCAACATAAAGAGGCGGAGTTTCTGCAGAAGCTGCTTCCAGGA
TACTACATGAACTTCAACCAGAACCCTCGGACTTTGCTGCCTAAATTTTATGGACTGTACTGTGTGCAGGTAGGTGACAA
GAACATTCGGATTGTGGTGATGAACAATCTTTTACCAAGATCGGTAAAAATGCATATCAAATATGACCTCAAAGGCTCAA
CCTACAAACGGCGGGCTTCCCAGAAAGAGCGAGAGAAGCCTCTTCCCACATTTAAAGACCTAGACTTCTTACAAGACATC
CCTGATGGTCTTTTTTTGGATGCTGACATGCACAATGCTCTCTGTAAGACCCTGCAGCGTGACTGTTTGGTGCTGCAGAG
CTTCAAGATAATGGATTATAGCCTCTTGATGTCAATCCATAATATAGATCATGCACAACGAGAGCCCTTAAGCAGCAAAA
CACAATACTCAGTTGATACTCGAAGACCAGCCCCCCAAAAGGCTCTGTATTCCACAGCCATGGAATCCATCCAGGGAGAG
GCTCGACGGGGTGGCACCGTGGAGACCGATGACCACATGGGTGGCATCCCTGCCCAGAATAGTAAAGGGGAAAGGCTTCT
GCTTTATATTGGCATCATTGACATTCTACAGTCTTACAGGTTTGTTAAAAAGTTGGAGCAATCTTGGAAAGCCCTGGTAC
GTGACGGAGACACTGTCTCAGTGCATCGCCCACGCTTCTACGCTAAATGATTCCAGCGCTTCATGTGCAACACAGTATTT
AAGGAGATTCCCTTGAAGCCTTCTCCCTACAAAAAGTTTCAGTCTGGCTCATCTTTCTCTCAATGAGCAGGCTCCAGTGG
CAACTCCTGCATTATTTACCAGCCACTGGTCTCTGGGGAACACAAGGCACAAGTGACAACAAAGGCGGAAGTGGAGCCAG
GCGTTCACCTTGGTCGTCCTGATGTTTTACCTCAGATCCCACCTTTGGAGGAAATCAGTGAGGGCTCGCCTATTCCTGAC
CCCAGTTTCTCACCTCTAGTTGGAGAGACTTTGCAAATGCTAACTACAAGT

Alignment

ORF - retro_nleu_468 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.37 %
• Parental protein coverage: 88.43 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SSVPYASGMPIKKIGHRSVDSSGETTYKKTTSSALKGAIQLGITHTVGSLSTKPERDVLMQDFYVVESIF
          S.VPYASGMPIKK.GHRSV.SSGETTYKKTTSSALKGAIQLGITHTVGSLSTKPERDVLMQDF..VESIF
Retrocopy SEVPYASGMPIKKTGHRSVASSGETTYKKTTSSALKGAIQLGITHTVGSLSTKPERDVLMQDFHMVESIF

Parental  FPSEGSNLTPAHHYNDFRFKTYAPVAFRYFRELFGIRPDDYLYSLCSEPLIELCSSGASGSLFYVSSDDE
          FPSEGS.LTPAHHYNDF.FKTYAPVAFRYFRELFGIRPDDYLYSLCSEPLIELCSSGASGSLFYVSSDDE
Retrocopy FPSEGSKLTPAHHYNDFSFKTYAPVAFRYFRELFGIRPDDYLYSLCSEPLIELCSSGASGSLFYVSSDDE

Parental  FIIKTVQHKEAEFLQKLLPGYYMNLNQNPRTLLPKFYGLYCVQAGGKNIRIVVMNNLLPRSVKMHIKYDL
          FIIKTVQHKEAEFLQKLLPGYYMN.NQNPRTLLPKFYGLYCVQ.G.KNIRIVVMNNLLPRSVKMHIKYDL
Retrocopy FIIKTVQHKEAEFLQKLLPGYYMNFNQNPRTLLPKFYGLYCVQVGDKNIRIVVMNNLLPRSVKMHIKYDL

Parental  KGSTYKRRASQKEREKPLPTFKDLDFLQDIPDGLFLDADMYNALCKTLQRDCLVLQSFKIMDYSLLMSIH
          KGSTYKRRASQKEREKPLPTFKDLDFLQDIPDGLFLDADM.NALCKTLQRDCLVLQSFKIMDYSLLMSIH
Retrocopy KGSTYKRRASQKEREKPLPTFKDLDFLQDIPDGLFLDADMHNALCKTLQRDCLVLQSFKIMDYSLLMSIH

Parental  NIDHAQREPLSSETQYSVDTRRPAPQKALYSTAMESIQGEARRGGTMETDDHMGGIPARNSKGERLLLYI
          NIDHAQREPLSS.TQYSVDTRRPAPQKALYSTAMESIQGEARRGGT.ETDDHMGGIPA.NSKGERLLLYI
Retrocopy NIDHAQREPLSSKTQYSVDTRRPAPQKALYSTAMESIQGEARRGGTVETDDHMGGIPAQNSKGERLLLYI

Parental  GIIDILQSYRFVKKLEHSWKALVHDGDTVSVHRPGFYAERFQRFMCNTVFKKIPLKPSPSKKFRSGSSFS
          GIIDILQSYRFVKKLE.SWKALV.DGDTVSVHRP.FYA..FQRFMCNTVFK.IPLKPSP.KKF.SGSSFS
Retrocopy GIIDILQSYRFVKKLEQSWKALVRDGDTVSVHRPRFYAK*FQRFMCNTVFKEIPLKPSPYKKFQSGSSFS

Parental  RRAGSSGNSCITYQPSVSGEHKAQVTTKAEVEPGIHLGRPDVLPQTPPLEEISEGSPIPDPSFSPLVGET
          ..AGSSGNSCI.YQP.VSGEHKAQVTTKAEVEPG.HLGRPDVLPQ.PPLEEISEGSPIPDPSFSPLVGET
Retrocopy Q*AGSSGNSCIIYQPLVSGEHKAQVTTKAEVEPGVHLGRPDVLPQIPPLEEISEGSPIPDPSFSPLVGET

Parental  LQMLTTS
          LQMLTTS
Retrocopy LQMLTTS

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_468 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000143398	2 retrocopies	retro_hsap_3420, retro_hsap_716,
Macaca mulatta	ENSMMUG00000005228	1 retrocopy	retro_mmul_1748,
Nomascus leucogenys	ENSNLEG00000010130	2 retrocopies	retro_nleu_468 , retro_nleu_5,
Otolemur garnettii	ENSOGAG00000002846	1 retrocopy	retro_ogar_1855,
Pongo abelii	ENSPPYG00000000872	4 retrocopies	retro_pabe_3037, retro_pabe_3112, retro_pabe_59, retro_pabe_619,
Pan troglodytes	ENSPTRG00000001282	2 retrocopies	retro_ptro_2324, retro_ptro_511,