RetrogeneDB ID: retro_nleu_1227

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397285.1:1021579..1022536(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WDR45L
• Ensembl ID: ENSNLEG00000010516
• Aliases: None
• Description: None

Sequence

>retro_nleu_1227
ATGATCTTCCTACCATGTAACTCGCCCAGTAACTAGCTGCTTTACACCGGCTTCAGCCAGGACCACGGATGCCTTGCTTG
TGGGATGGAAAACGGATTCTGAGTCTATAACACCAATCCATTAAAAGAAAAAGAGAAACAAAAATTTCTAGGAGGAAGAG
TTGGCCATAATGAAATGTTATTTTGCTGCAACTATTTAACTTTAGTTGTTGGTGGAAAAAAGCCAAAATACCTTCCCAAC
AAAGTGATGATCTGAGATGACTGAAAAAGAAGACTGTTAATGAAATAGAATTTGCTACAGAAGTCAAGGCAGTCAAATTG
CAGCAAGATAGAATTGTGGTTGTTTTGGACTCCATGATTAAGGTGTTCACACTCACACAGAACCCCCATCAGTTGTACAT
CTTTGAAACCTCTTAAAACCCTAAAGGCCTCTGTCCTCTGTCCCAATAGCAACAACTCTCTTCTGGCCTTGCCGGGCACG
CACACGGGCCATGTTCAGCTCGTGGACCAGGCCAGCACAGAGAAACCACCTGTGGACATTCCCGCTCCCGAGGGCATCCT
GAGCTGCATCACACTCAACCTGCAGGGAACAAGAATTGCAACCACACTCGAAAAAGGGACCCTTATAAGAATATTCGATA
CTTCATCAGGACATTTAATCCAGGAACTATGAAGAGGATCTCAAGCAGCTAATGTTTTCTGCATTAACTTCAATCAAGGT
GCGTCCTTCATCTGCATATCCGGTGACCACAGCACAGTGCACATTTTTTGCAGCTGAAGACCCAGGAAGGAATAAACAGT
CCAATTTGGTGTCAGCTAGTTTCCTTTCAAAATCCTTTAGTTGCAAAGGGGTTTTTCCAAGTTTCAGGTTCCCTTGGGTT
CTCCATGCATTTGTGCCCTTGGAGCAGAGCCAAATGCGGTCACTGCGATTTGTGCAGACGGCAGCTACTACAAATTC

Alignment

ORF - retro_nleu_1227 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.7 %
• Parental protein coverage: 98.16 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MNLLPCNPHGNGLLYAGFNQDHGCFACGMENGFRVYNTDPLKEKEKQEFLEGGVGHVEMLFRCNYLALVG
          M..LPCN...N.LLY.GF.QDHGC.ACGMENGF.VYNT.PLKEKEKQ.FL.G.VGH.EMLF.CNYL.LV.
Retrocopy MIFLPCNSPSN*LLYTGFSQDHGCLACGMENGF*VYNTNPLKEKEKQKFLGGRVGHNEMLFCCNYLTLVV

Parental  GGKKPKYPPNKVMIWDD-LKKKTVIEIEFSTEVKAVKLRRDRIVVVLDSMIKVFTFTHNPHQLHVFETCY
          GGKKPKY.PNKVMI.DD.LKKKTV.EIEF.TEVKAVKL..DRIVVVLDSMIKVFT.T.NPHQL..FET..
Retrocopy GGKKPKYLPNKVMI*DD<LKKKTVNEIEFATEVKAVKLQQDRIVVVLDSMIKVFTLTQNPHQLYIFETS*

Parental  NPKGLCVLCP-NSNNSLLAFPGTHTGHVQLVDLASTEKPPVDIPAHEGVLSCIALNLQGTRIATASEKGT
          NPKGLC.L.....N..L.A.PGTHTGHVQLVD.ASTEKPPVDIPA.EG.LSCI.LNLQGTRIAT..EKGT
Retrocopy NPKGLCPLSQ>SNNSLL-ALPGTHTGHVQLVDQASTEKPPVDIPAPEGILSCITLNLQGTRIATTLEKGT

Parental  LIRIFDTSSGHLIQELRRGSQAANIYCINFNQDASLICVSSDHGTVHI-FAAEDPKRNKQSSLASASFLP
          LIRIFDTSSGHLIQEL.RGSQAAN..CINFNQ.AS.IC.S.DH.TVHI.FAAEDP.RNKQS.L.SASFL.
Retrocopy LIRIFDTSSGHLIQEL*RGSQAANVFCINFNQGASFICISGDHSTVHI>FAAEDPGRNKQSNLVSASFLS

Parental  KYFSSKW-SFSKFQVPSGSPCICAFGTEPNAVIAICADGSYYKF
          K.FS.K...FSKFQVP.GSPCICA.G.EPNAV.AICADGSYYKF
Retrocopy KSFSCKG<GFSKFQVPLGSPCICALGAEPNAVTAICADGSYYKF

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_1227 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 10 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000005657	1 retrocopy	retro_cpor_322,
Homo sapiens	ENSG00000141580	2 retrocopies	retro_hsap_1820, retro_hsap_1879,
Gorilla gorilla	ENSGGOG00000006132	2 retrocopies	retro_ggor_1376, retro_ggor_2173,
Macropus eugenii	ENSMEUG00000013344	1 retrocopy	retro_meug_233,
Macaca mulatta	ENSMMUG00000021803	1 retrocopy	retro_mmul_1330,
Mus musculus	ENSMUSG00000025173	1 retrocopy	retro_mmus_1487,
Nomascus leucogenys	ENSNLEG00000010516	1 retrocopy	retro_nleu_1227 ,
Pongo abelii	ENSPPYG00000008785	2 retrocopies	retro_pabe_150, retro_pabe_1559,
Pan troglodytes	ENSPTRG00000009807	3 retrocopies	retro_ptro_1171, retro_ptro_1262, retro_ptro_2912,
Pteropus vampyrus	ENSPVAG00000006212	1 retrocopy	retro_pvam_158,