RetrogeneDB ID: retro_nleu_1611

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397301.1:1732411..1733003(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HNRNPAB
• Ensembl ID: ENSNLEG00000015775
• Aliases: None
• Description: None

Sequence

>retro_nleu_1611
AAAATGCTCGTTGGAGGCCTGAGCTGCGATATCAGCAAAAAAGATTTAAAAGACTGTTTTCCTAAATTTGGAGAGGTCAT
TGACTGTACAATAAAAATGGATCCCAACACTGGACGGGCAAGAGGGTTTGGGTTTTATCCTGTTCAAAGATGCAACCAAT
GTGGAGAAGGTCCTAGACCAGAAGGAGTACAGGCTGGATGGCCGTGTCATTGACCCTAAAAAGGCTATGGCTATGAAGAA
GTACCCGATGAAGAAAATCGTCGTCGAGGGTCTGAATCCTGAAGCCACTGAGGAAAAGATCAGGGAGTACTTTGGCGAAT
TTGGGGAGATCGAGGCCATTGAAATTCCAGTGGATCCAAAGTTGAACAAAAGACAAGGTTTTGTGTTTATCATCTTTAAA
AAAGAAGAACATGTGAAGAAAGTTCTGGAGAAAAATGTCCATACTATCAGTGGAAGCAAGTGTGAGATCAAGGTGGCCCA
GCCCAAAGAAGTTTATTGGCAGCAGCTGTATGGTTCTAGGGGCCGTGGAAACCACAACTGAGGGAACCGAGGCAGCGGAG
GTGGTGGTGGAGGTGGAGTTCAGGGCAGTACA

Alignment

ORF - retro_nleu_1611 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.84 %
• Parental protein coverage: 75.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGF-ILFKDAASVEKVLDQKEHRLDGRV
          KM.VGGLS.D.SKKDLKD.F.KFGEV.DCTIKMDPNTGR.RGFGF.ILFKDA..VEKVLDQKE.RLDGRV
Retrocopy KMLVGGLSCDISKKDLKDCFPKFGEVIDCTIKMDPNTGRARGFGF>ILFKDATNVEKVLDQKEYRLDGRV

Parental  IDPKKAMAMKKDPVKKIFVGGLNPEATEEKIREYFGEFGEIEAIELPMDPKLNKRRGFVFITFKEEEPVK
          IDPKKAMAMKK.P.KKI.V.GLNPEATEEKIREYFGEFGEIEAIE.P.DPKLNKR.GFVFI.FK.EE.VK
Retrocopy IDPKKAMAMKKYPMKKIVVEGLNPEATEEKIREYFGEFGEIEAIEIPVDPKLNKRQGFVFIIFKKEEHVK

Parental  KVLEKKFHTISGSKCEIKVAQPKEVYQQQQYGSGGRGNRNRGNRGSGGGGGGGGQSQS
          KVLEK..HTISGSKCEIKVAQPKEVY.QQ.YGS.GRGN.N.GNRGSGGGGGGG.Q...
Retrocopy KVLEKNVHTISGSKCEIKVAQPKEVYWQQLYGSRGRGNHN*GNRGSGGGGGGGVQGST

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_1611 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 12 parental genes, and 51 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000000241	2 retrocopies	retro_cfam_408, retro_cfam_412,
Homo sapiens	ENSG00000197451	1 retrocopy	retro_hsap_962,
Loxodonta africana	ENSLAFG00000001189	1 retrocopy	retro_lafr_405,
Macropus eugenii	ENSMEUG00000007909	2 retrocopies	retro_meug_169, retro_meug_246,
Myotis lucifugus	ENSMLUG00000003380	2 retrocopies	retro_mluc_2024, retro_mluc_2138,
Nomascus leucogenys	ENSNLEG00000008636	1 retrocopy	retro_nleu_673,
Nomascus leucogenys	ENSNLEG00000015775	1 retrocopy	retro_nleu_1611 ,
Nomascus leucogenys	ENSNLEG00000017659	34 retrocopies	retro_nleu_1011, retro_nleu_1090, retro_nleu_1257, retro_nleu_130, retro_nleu_132, retro_nleu_1497, retro_nleu_1630, retro_nleu_1648, retro_nleu_166, retro_nleu_167, retro_nleu_1695, retro_nleu_1739, retro_nleu_1774, retro_nleu_1802, retro_nleu_1875, retro_nleu_190, retro_nleu_2040, retro_nleu_2222, retro_nleu_2304, retro_nleu_2324, retro_nleu_2378, retro_nleu_2690, retro_nleu_2742, retro_nleu_2852, retro_nleu_32, retro_nleu_366, retro_nleu_458, retro_nleu_587, retro_nleu_601, retro_nleu_645, retro_nleu_648, retro_nleu_708, retro_nleu_825, retro_nleu_987,
Oryctolagus cuniculus	ENSOCUG00000026424	3 retrocopies	retro_ocun_1800, retro_ocun_1811, retro_ocun_950,
Otolemur garnettii	ENSOGAG00000030251	2 retrocopies	retro_ogar_3509, retro_ogar_385,
Pongo abelii	ENSPPYG00000016107	1 retrocopy	retro_pabe_821,
Pan troglodytes	ENSPTRG00000017601	1 retrocopy	retro_ptro_666,