RetrogeneDB ID: retro_nleu_1650

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397302.1:11348509..11349352(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000018590
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: GK
• Ensembl ID: ENSNLEG00000010102
• Aliases: None
• Description: None

Sequence

>retro_nleu_1650
AAAACTGGGGCCCTGGAAGGTGTGCCAATATCTGGGTGTCTGGGGGACCAATGTGCTGCATTAGTAGGACAAATGTGCTT
CCAGGAAGGACAAGCCAAAAACACCTATGGAACAGGTTGCTTCTTACTATGCAATACAGGTCGTAAATGTGTGTTTTCTG
AACATGGCCTTCTGACCACAGTAGCTTACAAACTAGGCAGAGAGAAGCCAGCATATTATGCACTGGAAGGTTCTGTTGCT
ATAGCAGGTGCTGTTATTCGTTGGCTAAGAGACAATCTTGGAATTATAGAGACCTCAGGAGACATTGAAAAACTTGCTAA
AGAAGTAGGAACTTCTTATGGCTGTTACTTTGTCCCAGCCTTTTCAGGGTTATATGCACCTTATTGGGAGCCCAGTGCAA
GAGGGATACTCTGTGGTCTCACTCAGTTTACCAATAAATGTCATATTGCTTTTGCTGCATTAGAAGCTGTTTGTTTCCAA
ACCCGAGAGATTTTGGAAGCCATGAACCGTGACTGTGGAATTCCACTTCGTCATTTGCAGGTAGATGGAGGAATGACCAA
CAACAAAGTTCTTATGCAACTACAAGCAGATATTCTGCATATTCCAGTAATAAAACCCCTTATGCCGGAAACAACCGCAC
TAGGAGCTGCCATGGCAGCAGGGGCTGCAGAGGGAGTAAGCGTTTGGAGCCTTGAACCCCAGGCTTTGTCAGTTCTCAGG
ATGGAACGATTTGAACCACAGATCCAGGCCACAGAAAGTGAAATTCGTTATGCCACATGGAAGAAAGCTGTAATGAAGTC
AATGGGTTGGGTTACCAGTCAGTCTCCTAAAAGTGGTGATCCT

Alignment

ORF - retro_nleu_1650 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.32 %
• Parental protein coverage: 53.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KAGALEGVPISGCLGDQSAALVGQMCFQIGQAKNTYGTGCFLLCNTGHKCVFSDHGLLTTVAYKLGRDKP
          K.GALEGVPISGCLGDQ.AALVGQMCFQ.GQAKNTYGTGCFLLCNTG.KCVFS.HGLLTTVAYKLGR.KP
Retrocopy KTGALEGVPISGCLGDQCAALVGQMCFQEGQAKNTYGTGCFLLCNTGRKCVFSEHGLLTTVAYKLGREKP

Parental  VYYALEGSVAIAGAVIRWLRDNLGIIKTSEEIEKLAKEVGTSYGCYFVPAFSGLYAPYWEPSARGIICGL
          .YYALEGSVAIAGAVIRWLRDNLGII.TS..IEKLAKEVGTSYGCYFVPAFSGLYAPYWEPSARGI.CGL
Retrocopy AYYALEGSVAIAGAVIRWLRDNLGIIETSGDIEKLAKEVGTSYGCYFVPAFSGLYAPYWEPSARGILCGL

Parental  TQFTNKCHIAFAALEAVCFQTREILDAMNRDCGIPLSHLQVDGGMTSNKILMQLQADILYIPVVKPSMPE
          TQFTNKCHIAFAALEAVCFQTREIL.AMNRDCGIPL.HLQVDGGMT.NK.LMQLQADIL.IPV.KP.MPE
Retrocopy TQFTNKCHIAFAALEAVCFQTREILEAMNRDCGIPLRHLQVDGGMTNNKVLMQLQADILHIPVIKPLMPE

Parental  TTALGAAMAAGAAEGVGVWSLEPEDLSAVTMERFEPQINAEESEIRYSTWKKAVMKSMGWVTTQSPESGI
          TTALGAAMAAGAAEGV.VWSLEP..LS...MERFEPQI.A.ESEIRY.TWKKAVMKSMGWVT.QSP.SG.
Retrocopy TTALGAAMAAGAAEGVSVWSLEPQALSVLRMERFEPQIQATESEIRYATWKKAVMKSMGWVTSQSPKSGD

Parental  P
          P
Retrocopy P

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_1650 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 14 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007633	3 retrocopies	retro_cjac_125, retro_cjac_3161, retro_cjac_4035,
Cavia porcellus	ENSCPOG00000003261	2 retrocopies	retro_cpor_11, retro_cpor_20,
Echinops telfairi	ENSETEG00000008279	2 retrocopies	retro_etel_2000, retro_etel_247,
Felis catus	ENSFCAG00000004264	1 retrocopy	retro_fcat_140,
Homo sapiens	ENSG00000198814	4 retrocopies	retro_hsap_3087, retro_hsap_3120, retro_hsap_4885, retro_hsap_70,
Loxodonta africana	ENSLAFG00000007632	1 retrocopy	retro_lafr_30,
Monodelphis domestica	ENSMODG00000002417	1 retrocopy	retro_mdom_234,
Mus musculus	ENSMUSG00000025059	2 retrocopies	retro_mmus_119, retro_mmus_97,
Nomascus leucogenys	ENSNLEG00000010102	2 retrocopies	retro_nleu_1650 , retro_nleu_771,
Oryctolagus cuniculus	ENSOCUG00000013023	2 retrocopies	retro_ocun_2, retro_ocun_81,
Rattus norvegicus	ENSRNOG00000034116	2 retrocopies	retro_rnor_114, retro_rnor_34,
Sarcophilus harrisii	ENSSHAG00000006470	1 retrocopy	retro_shar_35,
Ictidomys tridecemlineatus	ENSSTOG00000008732	1 retrocopy	retro_itri_1436,
Tarsius syrichta	ENSTSYG00000008249	1 retrocopy	retro_tsyr_29,