RetrogeneDB ID:

retro_nleu_964

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397277.1:11508769..11509211(-)
Located in intron of:ENSNLEG00000011525
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CBX3
Ensembl ID:ENSNLEG00000014931
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_964
AAAATGTATGACTGACGTGTAGTGAATGGGAAAGTGGAATATTTCCTTAAGTGGGAGGGATTTACAGATGCTGACAACCC
TTGGGAACCTAAAGAAAATTCAGATTGTTCAGGGTTAATTGAAGCATTTCTTAATTCTCAAAAAACTAGTCAAGAAAAAG
ATGACACGAACAGAAAATCTTTATCTGACAGTGAATCTGATGACAGTAAATCAAAGAAGGGATGCTGCTGACAAACCAAA
AGGCTTTGCCAGATGTCTTGATCCTGAAGGAGTAATTGGTGCCACAGACAGTAGTGGAGAATTGCTGTTTCTCATGAAAA
GGAAGGATTCAGATTAGGCAGAGTTGCTGCTGGCAAAAGAGGCAAATATGAAGGGTTCTCAAATTGTAACTGCTTTTTAT
AAACAGAAACTAACTTGGCATTCTTGTCCAGAAAATGAAGCA

ORF - retro_nleu_964 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.33 %
Parental protein coverage: 81.42 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalKVLDRRVVNGKVEYFLKWKGFTDADNTWEPEENLDCPELIEAFLNSQKAGKEKDGTKRKSLSDSESDDSK
K..D.RVVNGKVEYFLKW.GFTDADN.WEP.EN.DC..LIEAFLNSQK...EKD.T.RKSLSDSESDD..
RetrocopyKMYD*RVVNGKVEYFLKWEGFTDADNPWEPKENSDCSGLIEAFLNSQKTSQEKDDTNRKSLSDSESDD--
ParentalSKKK-RDAADKPRGFARGLDPERIIGATDSSGELMFLMKWKDSDEADLVLAKEANMKCPQIVIAFYEERL
SK.K.RDAADKP.GFAR.LDPE..IGATDSSGEL.FLMK.KDSD.A.L.LAKEANMK..QIV.AFY...L
RetrocopySKSK>RDAADKPKGFARCLDPEGVIGATDSSGELLFLMKRKDSD*AELLLAKEANMKGSQIVTAFYKQKL
ParentalTWHSCPEDEA
TWHSCPE.EA
RetrocopyTWHSCPENEA

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Nomascus leucogenys was not studied using RNA-Seq expression data.
Nomascus leucogenys was not studied using ChIP-Seq data.
Nomascus leucogenys was not studied using EST data.
Nomascus leucogenys was not studied using FANTOM5 data.
retro_nleu_964 was not experimentally validated.

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 11 parental genes, and 68 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG0000001384322 retrocopies
Cavia porcellus ENSCPOG000000151681 retrocopy
Felis catus ENSFCAG000000152246 retrocopies
Homo sapiens ENSG000001225659 retrocopies
Nomascus leucogenys ENSNLEG000000024354 retrocopies
Nomascus leucogenys ENSNLEG00000014931 9 retrocopies
Nomascus leucogenys ENSNLEG000000176711 retrocopy
Ochotona princeps ENSOPRG000000117139 retrocopies
Sorex araneus ENSSARG000000080112 retrocopies
Sarcophilus harrisii ENSSHAG000000179131 retrocopy
Sus scrofa ENSSSCG000000167114 retrocopies



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