RetrogeneDB ID: retro_nleu_1623

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397301.1:7276762..7277233(-)
• Located in intron of: ENSNLEG00000004222

Retrocopy information

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

Parental gene information

• Parental gene symbol: EGLN3
• Ensembl ID: ENSNLEG00000003247
• Aliases: None
• Description: None

Sequence

>retro_nleu_1623
GGGAGCAACAAGAAGGGCTGTGAGGCCATTAGCTTCCTCCTGTCCCTCACTGACAGGCTGGTCCTCTAGTGCAGGAGCCG
CTGGGAAAATACTATGTCAAGGAGAGGTACAAGGCAATGGTGGCTTGCTATCTTAAAAATGGAATAGGTTACATTCATCA
TGTGGACAACCCCAACAATGATGGCCGCTGCATCGCCTGCATCTACTATCTGAACAAGAATTAGGATACCACACTACGCG
GTGGGATCCTATGGCTATTTTCAGAGGAGAAATCATTCATGGCAGATGTGGAGGCCATTTGTGAAAAAGTCCTGCTCTTC
TGATCAGATTGCAGGAACCTACACGAGGTGCTGTCTTCTATGAGACCAGATGTGCTATACTGTTTGGTACTTTGATAATG
AAGAAAGGACAGAAGCCAAAAAGAAATTCAGGAATTTAATTAGGAAACATCTGCCCTCACTGAAGATTGAC

Alignment

ORF - retro_nleu_1623 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.57 %
• Parental protein coverage: 66.11 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GGNEEGCEAISFLLSLIDRLVLYCGSR-LGKYYVKERSKAMVACYPGNGTGYVRHVDNPNGDGRCITCIY
          G.N..GCEAISFLLSL.DRLVL.C.SR.LGKYYVKER.KAMVACY..NG.GY..HVDNPN.DGRCI.CIY
Retrocopy GSNKKGCEAISFLLSLTDRLVL*CRSR<LGKYYVKERYKAMVACYLKNGIGYIHHVDNPNNDGRCIACIY

Parental  YLNKNWDAKLHGGILRIFPEGKSFIADVEPIFDRLLFFWSDRRNPHEVQPS-YATRYAM-TVWYFDAEER
          YLNKN.D..L.GGIL..F.E.KSF.ADVE.I....L.F.SD.RN.HEV..S.Y.TR.A..TVWYFD.EER
Retrocopy YLNKN*DTTLRGGILWLFSEEKSFMADVEAICEKVLLF*SDCRNLHEVLSS<YETRCAI<TVWYFDNEER

Parental  AEAKKKFRNLTRKTESALTED
          .EAKKKFRNL.RK....L..D
Retrocopy TEAKKKFRNLIRKHLPSLKID

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_1623 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000003247	1 retrocopy	retro_nleu_1623 ,
Oryctolagus cuniculus	ENSOCUG00000008560	1 retrocopy	retro_ocun_1902,