RetrogeneDB ID: retro_nleu_1181

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397284.1:3166515..3166842(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDV3
• Ensembl ID: ENSNLEG00000003470
• Aliases: None
• Description: None

Sequence

>retro_nleu_1181
ATGGCCGCGACAGAGGAGCGGAGCCTGCACAACTTCTTTGCCAATTGGGACAAGAAGAAGAAGAAGGAGCAGAGCAACCG
GGCGGCGAGTTCCGCGGGCGCAGCAGGCAGCGCGGCGGGAGCACTGGAGCTCCGCATTCTAGAGGGCGGCGGGCGGGCGC
AGGGACCTGGCTGGGCGAAGGCGGGACCGAGCGCGGAAGCTGCGGGCCCAGAGGTCGCCACCAAAGCTGTGAAGAAGGAC
AAAGGTGAATGGAAAGGCTTGGAGTAAAAGGAGGTTGATTAGAGCGGCCTCGGGGTTCAGGCAATGCAAATAAGTGAAAA
GGAAGAA

Alignment

ORF - retro_nleu_1181 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.8 %
• Parental protein coverage: 51.9 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAETEERSLDNFFAKRDKKKKKERSNRSASAAGAAGSAGGSSEPRISTSGRPKAQAAPPSGGTRSGAALP
          MA.TEERSL.NFFA..DKKKKKE.SNR.AS.AGAAGSA.G..E.RI...G...........G....AA.P
Retrocopy MAATEERSLHNFFANWDKKKKKEQSNRAASSAGAAGSAAGALELRILEGGGRAQGPGWAKAGPSAEAAGP

Parental  STEQRLSGDDEDEWKELEQKEVDYSGLRVQAMQISEKED
          .........D..EWK.LE.KEVD.SGL.VQAMQISEKE.
Retrocopy EVATKAVKKDKGEWKGLE*KEVD*SGLGVQAMQISEKEE

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_1181 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 9 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000035556	1 retrocopy	retro_btau_253,
Choloepus hoffmanni	ENSCHOG00000008963	5 retrocopies	retro_chof_1355, retro_chof_1701, retro_chof_1763, retro_chof_2308, retro_chof_818,
Dasypus novemcinctus	ENSDNOG00000010208	5 retrocopies	retro_dnov_2359, retro_dnov_2616, retro_dnov_460, retro_dnov_496, retro_dnov_656,
Equus caballus	ENSECAG00000015689	2 retrocopies	retro_ecab_444, retro_ecab_636,
Myotis lucifugus	ENSMLUG00000009864	1 retrocopy	retro_mluc_1296,
Nomascus leucogenys	ENSNLEG00000003470	1 retrocopy	retro_nleu_1181 ,
Oryctolagus cuniculus	ENSOCUG00000012748	1 retrocopy	retro_ocun_1106,
Sus scrofa	ENSSSCG00000011637	1 retrocopy	retro_sscr_701,
Tupaia belangeri	ENSTBEG00000014910	5 retrocopies	retro_tbel_2284, retro_tbel_2443, retro_tbel_4022, retro_tbel_4157, retro_tbel_4378,