RetrogeneDB ID: retro_nleu_862

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397275.1:18521185..18521409(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFA4L2
• Ensembl ID: ENSNLEG00000017371
• Aliases: None
• Description: None

Sequence

>retro_nleu_862
CAGGCCAAGAAGCATCTGAGCTTGATCCCCTCTTTGTGTTTATTGGAGCTGAAGGTACTGCAGCAGCACTGTGTGTCTTG
TGTCTGGCATTGTTCAATCCAGATGTTAGTTGAGACGGAAAGAATAACCCAGAACCCTGAAACAAACTGGGTCCCAATGA
TCCATACAAGTTCTAGCCAGTGAATGTGGATTACAGCATACTGAAGAAAGAAGGTCCAGATTTC

Alignment

ORF - retro_nleu_862 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.95 %
• Parental protein coverage: 86.21 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QIKRHPGIIPMIGLTCLGM-GSAALYLLRLALRSPDVCWDRKNNPEPWNRLSPNDQYKFLAVSTDYKKLK
          Q.K.H...IP...L..L.....AAL..L.LAL..PDV..D.KNNPEP.N.L.PND.YKF..V..DY..LK
Retrocopy QAKKHLSLIPSLCLLELKV<TAAALCVLCLALFNPDVS*DGKNNPEP*NKLGPNDPYKF*PVNVDYSILK

Parental  KDRPDF
          K..PDF
Retrocopy KEGPDF

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_862 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 7 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000004466	1 retrocopy	retro_etel_52,
Homo sapiens	ENSG00000185633	2 retrocopies	retro_hsap_4698, retro_hsap_4857,
Loxodonta africana	ENSLAFG00000021950	1 retrocopy	retro_lafr_21,
Macropus eugenii	ENSMEUG00000014358	3 retrocopies	retro_meug_1159, retro_meug_1559, retro_meug_467,
Nomascus leucogenys	ENSNLEG00000017371	10 retrocopies	retro_nleu_1015, retro_nleu_1048, retro_nleu_1851, retro_nleu_1917, retro_nleu_2588, retro_nleu_2952, retro_nleu_363, retro_nleu_732, retro_nleu_862 , retro_nleu_956,
Ictidomys tridecemlineatus	ENSSTOG00000020476	1 retrocopy	retro_itri_23,
Tupaia belangeri	ENSTBEG00000015731	5 retrocopies	retro_tbel_3586, retro_tbel_4134, retro_tbel_4193, retro_tbel_822, retro_tbel_865,