RetrogeneDB ID: retro_nleu_1965

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397319.1:8925520..8926109(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000254505
• Ensembl ID: ENSNLEG00000015344
• Aliases: None
• Description: None

Sequence

>retro_nleu_1965
ACAGAGGAGATGGTAATCAAGAAACAGGAGTTTCTGGAGCAGATGATTCAACATGAATTGTTCGTTAGCAGCATTGAGAA
CAGACTATCAAAGAACCATGGTTCCAAGAATAAGAGAGCTGCTCTGCAGGCTTTACAGGGGAAGAAAAGATGGGAACAGC
AGCTGGCACAAACTGATGGAACATTATCCACCCTAGAGTTTCAGTATGAAGCCATTGAGAATGCCACTACCAATGCAAAA
ATGCTTTGTACCTTGTAGTTAGCTGCCTGAGGCATGAAGAAGGCCTACCAGGACCTGGACATTGGCAAGGTAGATGAATT
GATGGTTGACATCACAGAATAGCAGGAGGTGGCCCAGCAGATCTCGGATGCCATTTCTTGAGCTGTGGGTTTTGGAGAAG
ATGTGGGTGATCATGAACTGTTGGAGGAACTAGAGAAGCTGGAGGAGGAATTGGCCCAAGAATGGTTAAATGTGGGGCAA
CAAGGAGGAAGTGAACCCCAGTCAAATGGCTAGTGTATCCTCTGCACTATCTGCCTTCCTGGGAGGGTCAGCTCCCAAAG
CAGATGAAGACAAAGAAGCACTAAAGCAG

Alignment

ORF - retro_nleu_1965 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.24 %
• Parental protein coverage: 75.38 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TPEKAIQKLKETEKILIKKQEFLEQKIQQELQTAKKYGTKNKRAALQALRRKKRFEQQLAQTDGTLSTLE
          T.E..I.K....E.......E.....I...L...K..G.KNKRAALQAL..KKR.EQQLAQTDGTLSTLE
Retrocopy TEEMVIKKQEFLEQMI--QHELFVSSIENRL--SKNHGSKNKRAALQALQGKKRWEQQLAQTDGTLSTLE

Parental  FQREAIENATTNAEVLRTMELAAQSMKKAYQDMDIDKVDELMTDITEQQEVAQQISDAISRPMGFGDDVD
          FQ.EAIENATTNA..L.T..LAA..MKKAYQD.DI.KVDELM.DITE.QEVAQQISDAIS...GFG.DV.
Retrocopy FQYEAIENATTNAKMLCTL*LAA*GMKKAYQDLDIGKVDELMVDITE*QEVAQQISDAIS*AVGFGEDVG

Parental  EDELLEELEELEQEELAQELLNVGDK-GEEP-PVKLPSVPSTHLPA--GPAP-KVDEDEEELKQ
          ..ELLEELE.LE.EELAQE.LNVG...G.EP.PVK....P...LP...G..P.K.DED.E.LKQ
Retrocopy DHELLEELEKLE-EELAQEWLNVGQQGGSEP<PVKWLVYPLHYLPSWEGQLP<KADEDKEALKQ

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_1965 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000001725	1 retrocopy	retro_mmur_876,
Nomascus leucogenys	ENSNLEG00000013527	1 retrocopy	retro_nleu_387,
Nomascus leucogenys	ENSNLEG00000015344	1 retrocopy	retro_nleu_1965 ,