RetrogeneDB ID: retro_nleu_464

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397265.1:24662494..24663315(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUDT9
• Ensembl ID: ENSNLEG00000009520
• Aliases: None
• Description: None

Sequence

>retro_nleu_464
TCCGTGGTGGAGCGAAGCCTGGTTCCCCATGAGAAAGTGAGCTGGCTGGCCGAGTGGCGAGAGTAACGCGCGTGGAGTAC
ACTGCCAGCTCTGTCTTGCCTGGGCCCGTGTAGGCACACCCTCAAGAGGGTGAAAGGAACTTCTCTCCTAAGTTTAACGA
AAAGGATGGGCATGTGGAGAGAAGGAGCCAGCATGGCTTGTATGAGATTGAGAAGGGTAGACTTAGAAATCCTGCACCTC
GGACAGGACTGGTCGGCCAAGAGCCTTTGGGGTGTTGGGGCCCCAATCATGCTGTAGATCCCATCTTAACCCGATGGAAA
AGGGATGGCAGGGGAAACGAAATTACCCACCCTATTTCTGGGAAAAATATCCTGCAATTTGTAGCCATCAAAAGGAAGGA
CTGTGGAGAATAGGCAATCCCAGGGGGGATGGTGGATCCAGGAGAGAAAATTAGTGCTACACTGAAGAGAGAATTTGGTG
AGGAAGCCATGAACTCTTTAAAGAAATCTAGGAAAGAAATGCAGGAATTGGAGAGACAATTGCACAAACTCCTCAGCCAG
GAACATTTTGTGGTCTATAAAGGCTACGTGGATGATTCTCGGAACACAGATAATTCCTGGATAGAGACAGAGGCTGTGAA
CTACCATGATGAAACTGGTGAAATAATGGACCATCTTCCTCTGGAAGCTGGCGATGATGCCAAGAAAGTGAAATGCGTGG
ACATTAATGATAAACTTGAGCTTTATGCCAGCCACTCCCAATTTCTTCAACTTGTGGCTGAGAAACGAGGTGCCCACTGG
AGTGAGGATATGTATCCTGAT

Alignment

ORF - retro_nleu_464 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76. %
• Parental protein coverage: 78.29 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SKVERSQVPNEKVGWLVEWQD-YNPVEYTAVSVLAGPRWADPQISESNFSPKFNEKDGHVERKSKNGLYE
          S.VERS.VP.EKV.WL.EW......VEYTA.SVL.GP..A.PQ..E.NFSPKFNEKDGHVER.S..GLYE
Retrocopy SVVERSLVPHEKVSWLAEWRE<VTRVEYTASSVLPGPV*AHPQEGERNFSPKFNEKDGHVERRSQHGLYE

Parental  IENGRPRNPAGRTGLVGRGLLGRWGPNHAADPIITRWKRDSSGNKIMHPVSGKHILQFVAIKRKDCGEWA
          IE.GR.RNPA.RTGLVG...LG.WGPNHA.DPI.TRWKRD..GN.I.HP.SGK.ILQFVAIKRKDCGE.A
Retrocopy IEKGRLRNPAPRTGLVGQEPLGCWGPNHAVDPILTRWKRDGRGNEITHPISGKNILQFVAIKRKDCGE*A

Parental  IPGGMVDPGEKISATLKREFGEEALNSLQKTSAEKREIEEKLHKLFSQDHLVIYKGYVDDPRNTDNAWME
          IPGGMVDPGEKISATLKREFGEEA.NSL.K...E..E.E..LHKL.SQ.H.V.YKGYVDD.RNTDN.W.E
Retrocopy IPGGMVDPGEKISATLKREFGEEAMNSLKKSRKEMQELERQLHKLLSQEHFVVYKGYVDDSRNTDNSWIE

Parental  TEAVNYHDETGEIMDNLTLEAGDDAGKVKWVDINDKLKLYASHSQFIKLVAEKRDAHWSEDSEAD
          TEAVNYHDETGEIMD.L.LEAGDDA.KVK.VDINDKL.LYASHSQF..LVAEKR.AHWSED...D
Retrocopy TEAVNYHDETGEIMDHLPLEAGDDAKKVKCVDINDKLELYASHSQFLQLVAEKRGAHWSEDMYPD

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_464 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 22 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000003244	1 retrocopy	retro_amel_612,
Bos taurus	ENSBTAG00000011354	1 retrocopy	retro_btau_1112,
Canis familiaris	ENSCAFG00000009529	1 retrocopy	retro_cfam_1271,
Callithrix jacchus	ENSCJAG00000006159	1 retrocopy	retro_cjac_1047,
Equus caballus	ENSECAG00000019556	1 retrocopy	retro_ecab_123,
Echinops telfairi	ENSETEG00000019164	1 retrocopy	retro_etel_348,
Felis catus	ENSFCAG00000003315	1 retrocopy	retro_fcat_1509,
Homo sapiens	ENSG00000170502	1 retrocopy	retro_hsap_709,
Gorilla gorilla	ENSGGOG00000014777	1 retrocopy	retro_ggor_602,
Loxodonta africana	ENSLAFG00000011391	1 retrocopy	retro_lafr_224,
Macropus eugenii	ENSMEUG00000012123	4 retrocopies	retro_meug_1072, retro_meug_1345, retro_meug_1758, retro_meug_2162,
Monodelphis domestica	ENSMODG00000020738	2 retrocopies	retro_mdom_157, retro_mdom_706,
Mustela putorius furo	ENSMPUG00000002258	1 retrocopy	retro_mputfur_585,
Nomascus leucogenys	ENSNLEG00000009520	1 retrocopy	retro_nleu_464 ,
Oryctolagus cuniculus	ENSOCUG00000002670	2 retrocopies	retro_ocun_1045, retro_ocun_990,
Ochotona princeps	ENSOPRG00000004055	1 retrocopy	retro_opri_1152,
Pongo abelii	ENSPPYG00000014914	1 retrocopy	retro_pabe_613,
Pan troglodytes	ENSPTRG00000016259	1 retrocopy	retro_ptro_506,
Pteropus vampyrus	ENSPVAG00000004829	1 retrocopy	retro_pvam_475,
Sus scrofa	ENSSSCG00000009223	1 retrocopy	retro_sscr_447,
Tursiops truncatus	ENSTTRG00000004207	1 retrocopy	retro_ttru_1549,
Vicugna pacos	ENSVPAG00000004012	1 retrocopy	retro_vpac_125,