RetrogeneDB ID: retro_nleu_462

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397265.1:19724948..19725771(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RSU1
• Ensembl ID: ENSNLEG00000012444
• Aliases: None
• Description: None

Sequence

>retro_nleu_462
GCTCTTCGTGACCATGTCCAAGACTCTGAAAAAGTTTGTGGAAAGCCAGGAAGTAGACAGGGTGACTAGGTCATCTACAA
CATGCTGTATGTCAATGGCACATTTTCCTTATCCCGTACCATACAACTGGTCCTCAGCCATAACAAGCTCACAGTGGTGC
CACCAAACACAGCAGAACTGAAGAATTTGGAAGTGCTCAACTTCCTTAATAGCCAGATTGAGGAGCTGCCCACCCAGATC
AGCAGCCTTCAGAAACTCAAACACGTGAACCTGGGCATGAATGGGCTAAATACTTTGCCTGAAGGATTTTGCTTTCTACC
GAGCTCTTGACCTTCTGGACTTGATGTACAATTTGAATGAAAATTCTCTTCCTGGAAACTTGATCTACCTTACCACCTTC
CGTGCACTCTTATGTAAGTGACAATGATTTTGAAATCCTGCAACCAGCTATTAGGAAGCTCACAAAGTTGCAGATACCCA
GCTTTAGGGATAACAACCTGATCTTGCAGCCTAGGGAAACTGGGGAGCTTACCCAGCTTAAGGAACTCAACATTCAGGGC
AACTGCCTGACCCTTCTGCCCCCAGAACTAGGAAACTTATATTTAACTGATCAGAAGAAGGTATGCAAAGTGGAGAACAG
CCCCTGGGTTACCCCAATTGCTGACCAGTTCCAGCTTGGTGTGTCCTGTGTGTTTGAATGTGTCTGTTCTGAGACATATG
AGTACCTCTATGGCAGCACATGCAGGCAAATCCAGAACCACCAAAAAATAATAATCACAAATCAGAAAAGATGAGCTGGA
AACACCTGACAGCCAGTAACAAA

Alignment

ORF - retro_nleu_462 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.86 %
• Parental protein coverage: 98.92 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SLKKLVEESREK-NQPEVDMSDRGISNMLDVNGLFTLSHITQLVLSHNKLTTVPPNIAELKNLEVLNFFN
          .L...V..S......P.....D..I.NML.VNG.F.LS...QLVLSHNKLT.VPPN.AELKNLEVLNF.N
Retrocopy ALRDHVQDSEKVCGKPGSRQGD*VIYNMLYVNGTFSLSRTIQLVLSHNKLTVVPPNTAELKNLEVLNFLN

Parental  NQIEELPTQISSLQKLKHLNLGMNRLNTLPRGFGSLP-ALEVLDLTYNNLSENSLPGNFFYLTTLRAL-Y
          .QIEELPTQISSLQKLKH.NLGMN.LNTLP.GF..LP.AL..LDL.YN.L.ENSLPGN..YLTT.RAL.Y
Retrocopy SQIEELPTQISSLQKLKHVNLGMNGLNTLPEGFCFLP>ALDLLDLMYN-LNENSLPGNLIYLTTFRAL>Y

Parental  LSDNDFEILPPDIGKLTKLQILSLRDNDLISLPKEIGELTQLKELHIQGNRLTVLPPELGNLDLTGQKQV
          .SDNDFEIL.P.I.KLTKLQI.S.RDN.LI..P.E.GELTQLKEL.IQGN.LT.LPPELGNL.LT.QK.V
Retrocopy VSDNDFEILQPAIRKLTKLQIPSFRDNNLILQPRETGELTQLKELNIQGNCLTLLPPELGNLYLTDQKKV

Parental  FKAENNPWVTPIADQFQLGVSHVFEYIRSETYKYLYG-RHMQANPEPPKKNNDKSKKISRKPLAAKNR
          .K.EN.PWVTPIADQFQLGVS.VFE...SETY.YLYG..HMQANPEPPK.NN.KS.K.S.K.L.A.N.
Retrocopy CKVENSPWVTPIADQFQLGVSCVFECVCSETYEYLYG<QHMQANPEPPKNNNHKSEKMSWKHLTASNK

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_462 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 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000148484	1 retrocopy	retro_hsap_575,
Gorilla gorilla	ENSGGOG00000028048	1 retrocopy	retro_ggor_512,
Macropus eugenii	ENSMEUG00000006702	1 retrocopy	retro_meug_2092,
Macaca mulatta	ENSMMUG00000016067	1 retrocopy	retro_mmul_712,
Monodelphis domestica	ENSMODG00000009942	1 retrocopy	retro_mdom_338,
Nomascus leucogenys	ENSNLEG00000004485	1 retrocopy	retro_nleu_1812,
Nomascus leucogenys	ENSNLEG00000012444	1 retrocopy	retro_nleu_462 ,
Pongo abelii	ENSPPYG00000002120	1 retrocopy	retro_pabe_611,
Pan troglodytes	ENSPTRG00000002325	1 retrocopy	retro_ptro_425,
Tarsius syrichta	ENSTSYG00000002386	1 retrocopy	retro_tsyr_730,