RetrogeneDB ID: retro_nleu_1715

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397306.1:7790803..7791250(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CYB5B
• Ensembl ID: ENSNLEG00000005515
• Aliases: None
• Description: None

Sequence

>retro_nleu_1715
ATTTCCAGTCCAATGGTGACTGCAAAAGCTAGCAGCAGTGATGAAAAAGGGCAGGGGGTAGGGACTTCCACCACCTATTA
CCAGTTGGAGGAGGTGGTGAAGCAAAACTCCTTGAAGGAACTGTGGCTAGTGATCCATGGGTGACTCTACAATGTTCCCC
ACTTTGAGGATCCCCCTGGCAGAGAAAAGTTCTGCTGGAACAAGCTGGTGCAGATGCAACTGAAAGTTTTGAAGATGTAG
GCCACTCCTCTGATGCCAGAGAAATGCTAAAGCAGTACTATATTGGTGCTGTCCATTTGAGTGACCTCAAACCTGGTAAT
TGTTAGCAAGGATCCTTTAAAAAATGACACATGCAAAAGTTTCTGGCCATATTGGATTTTCCCTATCGTAGGTGCTATCC
TCTTAGGTTACCTGCCTCACTCCTACATATCAGAAAGCAAATCCTCC

Alignment

ORF - retro_nleu_1715 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.71 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSGSMATAEASGSDGKGQEVETSVTYYRLEEVAKRNSLKELWLVIHGRVYDVTRFLNEHPGGEE-VLLEQ
          .S..M.TA.AS.SD.KGQ.V.TS.TYY.LEEV.K.NSLKELWLVIHG..Y.V..F....PG.E..VLLEQ
Retrocopy ISSPMVTAKASSSDEKGQGVGTSTTYYQLEEVVKQNSLKELWLVIHG*LYNVPHF-EDPPGREK<VLLEQ

Parental  AGVDASESFEDVGHSSDAREMLKQYYIGDIHPSDLKPEN-GSKDPSKNDTCKSCWAYWILPIVGAVLLGF
          AG.DA.ESFEDVGHSSDAREMLKQYYIG..H.SDLKP.N..SKDP.KNDTCKS.W.YWI.PIVGA.LLG.
Retrocopy AGADATESFEDVGHSSDAREMLKQYYIGAVHLSDLKPGN>VSKDPLKNDTCKSFWPYWIFPIVGAILLGY

Parental  LYRYYTSESKSS
          L...Y.SESKSS
Retrocopy LPHSYISESKSS

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_1715 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 19 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Anas platyrhynchos	ENSAPLG00000007518	1 retrocopy	retro_apla_13,
Dasypus novemcinctus	ENSDNOG00000008313	9 retrocopies	retro_dnov_1424, retro_dnov_2077, retro_dnov_2123, retro_dnov_2310, retro_dnov_2684, retro_dnov_2685, retro_dnov_706, retro_dnov_716, retro_dnov_728,
Felis catus	ENSFCAG00000024541	1 retrocopy	retro_fcat_1816,
Homo sapiens	ENSG00000103018	1 retrocopy	retro_hsap_1493,
Gallus gallus	ENSGALG00000000660	1 retrocopy	retro_ggal_13,
Gorilla gorilla	ENSGGOG00000015031	1 retrocopy	retro_ggor_1146,
Meleagris gallopavo	ENSMGAG00000008619	1 retrocopy	retro_mgal_12,
Myotis lucifugus	ENSMLUG00000006608	1 retrocopy	retro_mluc_1734,
Macaca mulatta	ENSMMUG00000012039	1 retrocopy	retro_mmul_128,
Nomascus leucogenys	ENSNLEG00000005515	1 retrocopy	retro_nleu_1715 ,
Nomascus leucogenys	ENSNLEG00000009232	1 retrocopy	retro_nleu_1066,
Oryctolagus cuniculus	ENSOCUG00000007729	2 retrocopies	retro_ocun_141, retro_ocun_255,
Pongo abelii	ENSPPYG00000007506	1 retrocopy	retro_pabe_1243,
Pan troglodytes	ENSPTRG00000008282	1 retrocopy	retro_ptro_1012,
Pteropus vampyrus	ENSPVAG00000015984	1 retrocopy	retro_pvam_977,
Sarcophilus harrisii	ENSSHAG00000014200	1 retrocopy	retro_shar_688,
Tarsius syrichta	ENSTSYG00000014292	1 retrocopy	retro_tsyr_2171,
Tursiops truncatus	ENSTTRG00000010016	1 retrocopy	retro_ttru_521,
Drosophila melanogaster	FBgn0029854	1 retrocopy	retro_dmel_39,