RetrogeneDB ID: retro_nleu_2184

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397333.1:4893922..4894476(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TNIP2
• Ensembl ID: ENSNLEG00000000191
• Aliases: None
• Description: None

Sequence

>retro_nleu_2184
ATGCGCCAGGAAATTGAGAGGCTTACTGAGCAACTAGAAGCGAAAGAGAGGGAGATGCAGCAGCTGCTGAGCCAGCCACA
GCACGAGCGAGAGAAGGAAGTCGTCCTGATGCGGAGGAGCATGGCGGAGGGGGAACCCGCCCACCTCGCCAGTGACGTTC
TGTGCCGCTCCTTGGCCAATGAGACCCACCAGCTGCGGAGGACGCTGACCTCCACTGCCCACATGTGTCAGCATCTGGCC
AAGTGTCTGGATAAAGGACAGCATGCACAAAGGAACGTCAGGGAGAGAAGTCCTGAAAGTCAGAACATACAGGTAGGGAC
ACCTCTGTCCAGAGTGTTAATGAGGAAGAAAATCGACTGTTAAAACAGAAGGTGACTCACGTTGAAGACCTCAATGCCAA
GTGGCAGCGATACGATGCCAGCAGGGACGAATACATGAGGGGGCTCCATGCACAGCTCAGGGGGCTGCAGACCCCCCATG
AGCCCGAGCTGATGAGGAAGGAGATCTCCCGGCTCAACAGATAGTTGGAAGAGAAAATAAACGACTGTGCAGAA

Alignment

ORF - retro_nleu_2184 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.71 %
• Parental protein coverage: 55.29 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MRQEIERLTERLEEKEREMQQLLNQPQHEREKEVVLLRRSMAEGERARAASDVLCRSLANETHQLRRTLT
          MRQEIERLTE.LE.KEREMQQLL.QPQHEREKEVVL.RRSMAEGE.A..ASDVLCRSLANETHQLRRTLT
Retrocopy MRQEIERLTEQLEAKEREMQQLLSQPQHEREKEVVLMRRSMAEGEPAHLASDVLCRSLANETHQLRRTLT

Parental  ATAHMCQHLAKCLDERQHAQRNVEEKSPD-QSEHTGGHTSVQSVIEKLQEENRLLKQKVTHVEDLNAKWQ
          .TAHMCQHLAKCLD..QHAQRNV.E.SP...SEHTG..TSVQSV.E...EENRLLKQKVTHVEDLNAKWQ
Retrocopy STAHMCQHLAKCLDKGQHAQRNVRERSPE<KSEHTGRDTSVQSVNE---EENRLLKQKVTHVEDLNAKWQ

Parental  RYDASRDEYVRGLHAQLRGLQIPRDSELMRKEISRLNRQLEEKINDCAE
          RYDASRDEY.RGLHAQLRGLQ.P...ELMRKEISRLNR.LEEKINDCAE
Retrocopy RYDASRDEYMRGLHAQLRGLQTPHEPELMRKEISRLNR*LEEKINDCAE

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_2184 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000168884	1 retrocopy	retro_hsap_4809,
Gorilla gorilla	ENSGGOG00000025865	1 retrocopy	retro_ggor_2994,
Nomascus leucogenys	ENSNLEG00000000191	1 retrocopy	retro_nleu_2184 ,
Pongo abelii	ENSPPYG00000014545	1 retrocopy	retro_pabe_3737,