RetrogeneDB ID: retro_nleu_2370

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397348.1:2187039..2187327(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000000366
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SFT2D2
• Ensembl ID: ENSNLEG00000014912
• Aliases: None
• Description: None

Sequence

>retro_nleu_2370
TTTGCAGTGTTTTATACCCTCGGCAATCTTGCTGCGTTAGCCAGTACATGCTTTTTGATGGGACCTGTGAAACAACTGAA
GAAAATGTTTGAAACAACAAGATTGCTTGCAACAATTATTATGCTGTTGTGTTTCGTATTTACCCTGTGTGCTGCTCTTT
GGTGGCATAAGAAGGGACTGGCTATGTTATTCTGCATATTGCAGTTCTTGTCAATGACCTGGTATAGCCTGTCGTACATC
CCATATGCAAGGGATGCAGTTATCAAATGCTGTTCTTCTCTCCTAAGT

Alignment

ORF - retro_nleu_2370 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.54 %
• Parental protein coverage: 59.75 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FAVFYTFGNIASIGSTIFLMGPVKQLKRMFEPTRLIATIMVLLCFALTLCSAFWVNEQEDCTIFCILQ-L
          FAVFYT.GN.A...ST.FLMGPVKQLK.MFE.TRL.ATI..LLCF..TLC.A.W.........FCILQ.L
Retrocopy FAVFYTLGNLAALASTCFLMGPVKQLKKMFETTRLLATIIMLLCFVFTLCAALWWHKKGLAMLFCILQFL

Parental  ALTWYSLSFIPFARDAVKKCFAVCLA
          ..TWYSLS.IP.ARDAV.KC....L.
Retrocopy SMTWYSLSYIPYARDAVIKCCSSLLS

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_2370 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000010720	1 retrocopy	retro_acar_131,
Callithrix jacchus	ENSCJAG00000016838	1 retrocopy	retro_cjac_2771,
Monodelphis domestica	ENSMODG00000002896	1 retrocopy	retro_mdom_607,
Mustela putorius furo	ENSMPUG00000000531	1 retrocopy	retro_mputfur_1560,
Nomascus leucogenys	ENSNLEG00000014912	1 retrocopy	retro_nleu_2370 ,
Rattus norvegicus	ENSRNOG00000003038	1 retrocopy	retro_rnor_1135,
Sarcophilus harrisii	ENSSHAG00000018938	1 retrocopy	retro_shar_212,
Ictidomys tridecemlineatus	ENSSTOG00000022560	1 retrocopy	retro_itri_133,