RetrogeneDB ID: retro_nleu_121

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: ADFV01134425.1:73942..74837(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000010554
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000005021
• Aliases: None
• Description: None

Sequence

>retro_nleu_121
ATGGCCCAGAACTTGAAGGACTTGGCAAGACGGCTGCCCGCCAGGCCCCGGGGCATGGGCAGCCCTGAAGCTGTTGCTGG
GGGCTGGCGCTGTGGCCTACGGTGTGCGCAAATCCGTGTTCACCATGGAAGGCAGGCACGGAGCCATCTTCTTCAATCGG
ATTGGTGGAGTGCAGCAGGACACTATCCTGGCTGAGGGCCTTCACTTCAGGATCCCTTGGGTCCAGTACCCCATTATCTA
TGACATCCGGGCCAGACTTCGAAAAATCTCCTCCCCTACAGGCTCCAAAGACCTACAGATGGTGAATATCTCCCTGCAAG
TGTTGTCTGGACCCAATGCTCAGGAGCTTCCTAGCATGTACCAGCGCCTAGGGCTGGACTGTGAGGAACGAGTGTTGCCG
TCCATTGCCAACGAGGTGCTCAACAGTGTGGTGGCCAAGTTCAATGCCTCACAGCTGATCACCCAGCGGGCCCAGGTATC
CCTGTTGATCCGCCGGGAGCTGACAGAGAGGGCCAAGGACTTCAGCCTCATCCTGGATGATGTGGCCATCACAGAGCTGA
GCTTTAGCCGAGAGTACACAGCTGCTGTAGAAGCCAAACAAGTGGCCCAGCAGGAGGCCCAGCGGGCCCAATTCTTGGTA
GAAAAAGCGAAGCAGGAACAGCGGCAGAAGATTGTGCAGGCCGAGGGTGAGGCCGAGGCTGCCAAGATGCTTGGAGAAGC
ACTCAGCAAGAACCCTGGCTACATCAAACTTCCCAAGATTCGAGCAGCCCAGAATATCTCCAAGACGATCGCCACATCAC
AGAATCGTATCTATCTCACGGCTGACAACCTCGTACTGAACCTACAGGATGAAAGTTTCACCAGAGGAAGTGACAGCCTC
ATCAAGGGTGAGAAA

Alignment

ORF - retro_nleu_121 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.37 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAQNLKDLAGRLPAGPR-GMG-TALKLLLGAGAVAYGVRESVFTVEGGHRAIFFNRIGGVQQDTILAEGL
          MAQNLKDLA.RLPA.PR.G.G..ALKLLLGAGAVAYGVR.SVFT.EG.H.AIFFNRIGGVQQDTILAEGL
Retrocopy MAQNLKDLARRLPARPR<GHG<AALKLLLGAGAVAYGVRKSVFTMEGRHGAIFFNRIGGVQQDTILAEGL

Parental  HFRIPWFQYPIIYDIRARPRKISSPTGSKDLQMVNISLRVLSRPNAQELPSMYQRLGLDYEERVLPSIVN
          HFRIPW.QYPIIYDIRAR.RKISSPTGSKDLQMVNISL.VLS.PNAQELPSMYQRLGLD.EERVLPSI.N
Retrocopy HFRIPWVQYPIIYDIRARLRKISSPTGSKDLQMVNISLQVLSGPNAQELPSMYQRLGLDCEERVLPSIAN

Parental  EVLKSVVAKFNASQLITQRAQVSLLIRRELTERAKDFSLILDDVAITELSFSREYTAAVEAKQVAQQEAQ
          EVL.SVVAKFNASQLITQRAQVSLLIRRELTERAKDFSLILDDVAITELSFSREYTAAVEAKQVAQQEAQ
Retrocopy EVLNSVVAKFNASQLITQRAQVSLLIRRELTERAKDFSLILDDVAITELSFSREYTAAVEAKQVAQQEAQ

Parental  RAQFLVEKAKQEQRQKIVQAEAQRRTGARECEALSKNPGYIKLRKIRAAQNISKTIATSQNRIYLTADNL
          RAQFLVEKAKQEQRQKIVQAE..........EALSKNPGYIKL.KIRAAQNISKTIATSQNRIYLTADNL
Retrocopy RAQFLVEKAKQEQRQKIVQAEGEAEAAKMLGEALSKNPGYIKLPKIRAAQNISKTIATSQNRIYLTADNL

Parental  VLNLQDESFTRGSDSLIKGKK
          VLNLQDESFTRGSDSLIKG.K
Retrocopy VLNLQDESFTRGSDSLIKGEK

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_121 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013760	1 retrocopy	retro_amel_1928,
Canis familiaris	ENSCAFG00000014439	1 retrocopy	retro_cfam_1885,
Callithrix jacchus	ENSCJAG00000007137	1 retrocopy	retro_cjac_781,
Homo sapiens	ENSG00000215021	1 retrocopy	retro_hsap_624,
Gorilla gorilla	ENSGGOG00000004281	1 retrocopy	retro_ggor_547,
Macaca mulatta	ENSMMUG00000010205	2 retrocopies	retro_mmul_2599, retro_mmul_2623,
Nomascus leucogenys	ENSNLEG00000005021	2 retrocopies	retro_nleu_121 , retro_nleu_450,
Pongo abelii	ENSPPYG00000004214	3 retrocopies	retro_pabe_419, retro_pabe_557, retro_pabe_559,
Rattus norvegicus	ENSRNOG00000012999	1 retrocopy	retro_rnor_2373,