RetrogeneDB ID: retro_nleu_605

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397268.1:4146458..4147037(-)
• Located in intron of: ENSNLEG00000003284

Retrocopy information

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

Parental gene information

• Parental gene symbol: SAP30
• Ensembl ID: ENSNLEG00000006666
• Aliases: None
• Description: None

Sequence

>retro_nleu_605
GCGGCAGCTGCAGTGGCCGCTGTGGTTGCCACTGCCTCGTCCGGGAAATCGGAGCTGAGGGGCGCAGGGGCGGTCTCAGC
GGCTGGGCCCCCGGGGGCGGCCAGGCCGGGCTCCTGGCAACTGTGCTGCCTGCGGAGGATGGTGAGCGGTGCGGTAGGGC
GGCAGGCAACGCCAGCTTCAGCAAGAGGATCCAGAAGAGCATATCCCAGAAGGTGAAGATCAAGCTGGATAAGAGCGCAG
GCATCTTTACATATGTGACTATCATAAAAACTTAACTCAGAGTATTCGAAACAGAAGAAAGAGAAAAGGGAGTGATGATG
ATGGAGGTGATTCACCTGTTCAAGATTTGATACCCCAGAGGTTGATTTATACCAATTACAAGTAAATACACTTAGGAGAT
ACAAAAGACACTTAAAGCCACCAACCAGACCAGGACTTAATAAAACACAACTTGTTGAGATAGTTGGTTGCCACTTTAGG
TCTATTCCAGTGAGTGAAAAAGACACCTTAACATATTTCATCTAATCAGTGAAGAATGACAAGAACAAATCAGATCTCCA
GGTTGATAGTGGTGTTCAC

Alignment

ORF - retro_nleu_605 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.85 %
• Parental protein coverage: 88.64 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  AAAAASAGNGTGAGTGAEVPGAGAVSAAGPPGAAGPGPGQLCCLR-EDGERCGRAAGNASFSKRIQKSIS
          AAAA..A...T......E..GAGAVSAAGPPGAA.PG..QLCCLR.EDGERCGRAAGNASFSKRIQKSIS
Retrocopy AAAAVAAVVATASSGKSELRGAGAVSAAGPPGAARPGSWQLCCLR<EDGERCGRAAGNASFSKRIQKSIS

Parental  QKKVKIELDKSA-RHLYICDYHKNLIQSVRNRRKRKGSDDDGGDSPVQDI-DTPEVDLYQLQVNTLRRYK
          QK.VKI.LDKSA.RHLYICDYHKNL.QS.RNRRKRKGSDDDGGDSPVQD..DTPEVDLYQLQVNTLRRYK
Retrocopy QK-VKIKLDKSA<RHLYICDYHKNLTQSIRNRRKRKGSDDDGGDSPVQDL<DTPEVDLYQLQVNTLRRYK

Parental  RHFKLPTRPGLNKAQLVEIVGCHFRSIPVNEKDTLTYFIYSVKNDKNKSDLKVDSGVH
          RH.K.PTRPGLNK.QLVEIVGCHFRSIPV.EKDTLTYFI.SVKNDKNKSDL.VDSGVH
Retrocopy RHLKPPTRPGLNKTQLVEIVGCHFRSIPVSEKDTLTYFI*SVKNDKNKSDLQVDSGVH

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_605 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.

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000164105	1 retrocopy	retro_hsap_2864,
Gorilla gorilla	ENSGGOG00000005082	2 retrocopies	retro_ggor_1980, retro_ggor_3072,
Macaca mulatta	ENSMMUG00000002401	1 retrocopy	retro_mmul_1467,
Monodelphis domestica	ENSMODG00000003536	1 retrocopy	retro_mdom_608,
Nomascus leucogenys	ENSNLEG00000006666	1 retrocopy	retro_nleu_605 ,
Pongo abelii	ENSPPYG00000015205	1 retrocopy	retro_pabe_2366,
Pan troglodytes	ENSPTRG00000016598	1 retrocopy	retro_ptro_1936,