RetrogeneDB ID: retro_nleu_573

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397267.1:17459280..17459581(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MED21
• Ensembl ID: ENSNLEG00000005431
• Aliases: None
• Description: None

Sequence

>retro_nleu_573
GATCAGCTCATGCAGCTGTTAAGACACCATGAACTCACTTTCAGATCAGTTTTGCAATGCCACTGATGTGTTGCAGCAAT
GTGGTCTTCCTGCCTCTTTTAATAATATTCAGACAGCAATTAACAAAGACCAGCCAGCTAACCCTACAGAAGAATATGCT
CAGCTTCTTATAGCACTGATTGCACAAACAGCAAAAGACATTCATGTTTTGATAGATTCCTTACCCAGTGAAGAATCTAC
AGCTGCTTTATAGGCTACTCCCTTTTGTAAGCTAGAAGAACAAAACCATGAAGCTGCTACG

Alignment

ORF - retro_nleu_573 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.21 %
• Parental protein coverage: 69.44 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DRLTQLQ-DAVNSLADQFCNAIGVLQQCGPPASFSNIQTAINKDQPANPTEEYAQLFAALIARTAKDIDV
          D.L.QL..D..NSL.DQFCNA..VLQQCG.PASF.NIQTAINKDQPANPTEEYAQL..ALIA.TAKDI.V
Retrocopy DQLMQLL>DTMNSLSDQFCNATDVLQQCGLPASFNNIQTAINKDQPANPTEEYAQLLIALIAQTAKDIHV

Parental  LIDSLPSEESTAALQAASLYKLEEENHEAAT
          LIDSLPSEESTAAL.A....KLEE.NHEAAT
Retrocopy LIDSLPSEESTAAL*ATPFCKLEEQNHEAAT

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_573 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.

---

Parental genes homology:

Parental genes homology involve 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011670	1 retrocopy	retro_amel_108,
Dasypus novemcinctus	ENSDNOG00000010041	1 retrocopy	retro_dnov_998,
Echinops telfairi	ENSETEG00000006223	1 retrocopy	retro_etel_1141,
Felis catus	ENSFCAG00000030691	1 retrocopy	retro_fcat_1101,
Homo sapiens	ENSG00000152944	1 retrocopy	retro_hsap_4105,
Gorilla gorilla	ENSGGOG00000016313	1 retrocopy	retro_ggor_2756,
Myotis lucifugus	ENSMLUG00000007678	1 retrocopy	retro_mluc_229,
Nomascus leucogenys	ENSNLEG00000005431	1 retrocopy	retro_nleu_573 ,
Pongo abelii	ENSPPYG00000004377	1 retrocopy	retro_pabe_3361,
Ictidomys tridecemlineatus	ENSSTOG00000008391	2 retrocopies	retro_itri_1005, retro_itri_1057,