RetrogeneDB ID: retro_nleu_1331

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397289.1:21380774..21381112(+)
• Located in intron of: ENSNLEG00000005301

Retrocopy information

• Ensembl ID: ENSNLEG00000005324
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CISD2
• Ensembl ID: ENSNLEG00000026930
• Aliases: None
• Description: CDGSH iron sulfur domain 2 [Source:HGNC Symbol;Acc:24212]

Sequence

>retro_nleu_1331
GTCCCTGAAAGCATTACCGGGTTCGCTAGGCTCACAGTTTCAGAATGGCTTCGATTATTGCCTTTCCTTGGTGTACTCGC
ACTTCTTGGCTACCTTGCAGTTCGTCCATTCCTCCCGAAGAAGAAACAACAGAAGGATAGCTTGATTAATCTTAAAATAC
AAAAGGAAAATCCGAAAGTAGTGAATGAAATAAACATTGAAGATTTGTGTCTTACTAAGCAGCTTATTGTAGGTGTTGGC
GTTCTAAAACGTTTCCTGCCTGTGATGGTTCACATAATAAACACAATGAATTGACAGGAGATAATGTGGGTCCACTAATA
CTGAAGAAGAAAGAAGTA

Alignment

ORF - retro_nleu_1331 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.32 %
• Parental protein coverage: 51.6 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VLESVARIMKVQLPAYLKRLPVPESITGFARLTVRPFLPKKKQQKDSLINLKIQKENPKVVNEINIEDLC
          V.ES............L..LP..........L.VRPFLPKKKQQKDSLINLKIQKENPKVVNEINIEDLC
Retrocopy VPESITGFARLTVSEWLRLLPFLGVLALLGYLAVRPFLPKKKQQKDSLINLKIQKENPKVVNEINIEDLC

Parental  LTK-AAYCRCWRSKTFPACDGSHNKHNELTGDNVGPLILKKKEV
          LTK.AAYCRCWRSKTFPACDGSHNKHNELTGDNVGPLILKKKEV
Retrocopy LTK<AAYCRCWRSKTFPACDGSHNKHNELTGDNVGPLILKKKEV

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_1331 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000010779	1 retrocopy	retro_cfam_1012,
Callithrix jacchus	ENSCJAG00000015530	1 retrocopy	retro_cjac_2668,
Felis catus	ENSFCAG00000028054	1 retrocopy	retro_fcat_1979,
Mus musculus	ENSMUSG00000028165	1 retrocopy	retro_mmus_2257,
Nomascus leucogenys	ENSNLEG00000026930	1 retrocopy	retro_nleu_1331 ,
Oryctolagus cuniculus	ENSOCUG00000013943	1 retrocopy	retro_ocun_1444,
Ictidomys tridecemlineatus	ENSSTOG00000001408	1 retrocopy	retro_itri_869,