RetrogeneDB ID: retro_nleu_100

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397796.1:103..1249(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000019345
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000001941
• Aliases: None
• Description: None

Sequence

>retro_nleu_100
ATCAACGTGACGGTGCAGGAGCCCGGCCGCGGCGCCCCGCTCACGTTCCGCATCGACCGCGGGCGCTACGGGCTTAACTC
CCCCAAGGCCGAGGTCTGCGGCCAGGTGCTGGCGCCGCTGCCCCTCCACGGAGTTGCTGATCATCTGGGCTGTGATCCAC
AAACCCGGTTCTTTGTCCCTCCTAATATCAAACAGTGGATTGCCTTGCTGCAGAGGGGAAACTGCACGTTTAAAGAGAAA
ATATCACGGGCCACTTTCCACAATGCAGTTGCTGTAGTCATCTACAATAATAAATCCAAAGAGGAGCCGGTTACCATGAC
TCGCCCAGGCACTGGAGATATTATTGCTGTCATGATAACAGAATTGAGGGGTAAGGATATTTTGAGTTATCTGGAGAAAA
ACATCTCTGTACAAATGACAATAAGTGTTGGAACTCGAATGCCACCGAAGAACTTCAGCCGTGGCTCTCTAGTCTTCGTG
TCAATATCCTTTATTGTTTTGATGATTATTTCTTCAGCATGGCTCATATTCTACTTCATTCAGAAGATCAGGTACACAAA
TGCACGCGACAGGAACCAGCGTCGTCTTGGAGATGCAGCCAAGAAAGCCATCAGTAAATTGACAACCAGGACAGTAAAGA
AGGGTGACAAGGAAACTGACCCAGACTTTGATCATTGTGCGGTCTGCATAGAGAGCTATAAGCAGAATGATGTCGTCCGA
ATTCTCCCCTGCAAGCATGTTTTCCACAAATCCTGCGTGGATCCCTGGCTTAGTGAACACTGTACCTGTCCTATGTGCAA
ACTTAATATATTGAAGGCCCTGGGAATTGTGCCGAATTTGCCATGTACTGATAACGTAGCATTCGATATGGAAAGGCTCA
CCAGAACCCAAGCTGTTAACCGAAGATCAGCCCTCGGCGACCTTGCCGGCGAAAACTCCCTCGGCCTTGAGCCACTTCGA
ACTTCGGGGATCTCGCCTCTTCCTCAGGACGGGGAGCTCACTCCGAGAACAGGAGAAATCAACATTGCAGTAACAAAAGA
ATGGTTTATTATTGCCAGTTTTGGCCTCCTCAGTGCCCTCACACTCTGCTACATGATCATCAGAGCCACAGCTAGCTTGA
CTGCTAATGAGGTAGAATGGTTTTGA

Alignment

ORF - retro_nleu_100 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.51 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GTGDIIAVMITELRGKDILSYLEKNISVQMTIAVGTRMPPKNFSRGSLVFVSISFIVLMIISSAWLIFYF
          GTGDIIAVMITELRGKDILSYLEKNISVQMTI.VGTRMPPKNFSRGSLVFVSISFIVLMIISSAWLIFYF
Retrocopy GTGDIIAVMITELRGKDILSYLEKNISVQMTISVGTRMPPKNFSRGSLVFVSISFIVLMIISSAWLIFYF

Parental  IQKIRYTNARDRNQRRLGDAAKKAISKLTTRTVKKGDKETDPDFDHCAVCIESYKQNDVVRILPCKHVFH
          IQKIRYTNARDRNQRRLGDAAKKAISKLTTRTVKKGDKETDPDFDHCAVCIESYKQNDVVRILPCKHVFH
Retrocopy IQKIRYTNARDRNQRRLGDAAKKAISKLTTRTVKKGDKETDPDFDHCAVCIESYKQNDVVRILPCKHVFH

Parental  KSCVDPWLSEHCTCPMCKLNILKALGIVPNLPCTDNVAFDMERLTRTQAVNRRSALGDLAGDNTLGLEPL
          KSCVDPWLSEHCTCPMCKLNILKALGIVPNLPCTDNVAFDMERLTRTQAVNRRSALGDLAG.N.LGLEPL
Retrocopy KSCVDPWLSEHCTCPMCKLNILKALGIVPNLPCTDNVAFDMERLTRTQAVNRRSALGDLAGENSLGLEPL

Parental  RTSGISPLPQDGELTPRTGEINIAVTKEWFIIASFGLLSALTLCYMIIRATASLNANE
          RTSGISPLPQDGELTPRTGEINIAVTKEWFIIASFGLLSALTLCYMIIRATASL.ANE
Retrocopy RTSGISPLPQDGELTPRTGEINIAVTKEWFIIASFGLLSALTLCYMIIRATASLTANE

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_100 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000008735	3 retrocopies	retro_lafr_628, retro_lafr_876, retro_lafr_969,
Nomascus leucogenys	ENSNLEG00000001941	1 retrocopy	retro_nleu_100 ,
Nomascus leucogenys	ENSNLEG00000003149	1 retrocopy	retro_nleu_627,
Sus scrofa	ENSSSCG00000014013	3 retrocopies	retro_sscr_150, retro_sscr_253, retro_sscr_254,