RetrogeneDB ID:

retro_nleu_1346

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397289.1:24379658..24380366(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KRT18
Ensembl ID:ENSNLEG00000017732
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1346
ATGAACTTCACCACTCGCTCCACCTTCTCCACCAACTACCGGTCCCTGGGCTCTGTCCAGGCGTCCAGCTACGGTGCCCA
GCCAGTCAGCAGCATGACCAGCGTCTATGCAGGCACTAGGGGCTCTGGTTCCCGGATCTCCATGTCTCACTCCACCAGCT
TCTGGGGCGGCATGGGGTCTGGGGGCCTGTCTGCAGGGATGGCTGGAGGTCTGGCAAGAATGGGAGGCATCCAGAATGAG
AAGGAGACCATGCAAAGCCTGAATGACTGCCTGGCCTCCTACCTGAACAGAGTGAGGAACCTGGAGATGGAGAACTGGAA
GCTAGAGAGCAAAATCCAGGAGCACCTGGAGAAGGGACCCCAGTTCAGAGATTGGAGCCGTTACTTCTAGACCATCAAGG
ACCTGAGGGCTCAGATCTTTGCAAATACTGTGGACAGTGCCTGCATCGTTCTGCAGATTGACAGTGCCCATCTTGCTGCT
GATGATTTTAGAGTCAAGTATGAGACAGAGCTGGCCGTGCACTGGTCTGTGGAGAACAACATCCATGGGCTTCACAAGGT
CATTGATGACACCAGTGTCACTCGGCTGCAGCTGGAGACAGAGATTGAGGCTTGCAAGGAAGAGCTGCTCTTCATGAAGA
AGAACCACGAAGGGGAATTAAAAGGCCTACAAGCCCAGATTGCCAGCTCTGGGTTGACCGTGGAGGTA

ORF - retro_nleu_1346 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.64 %
Parental protein coverage: 55.12 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMSFTTRSTFSTNYRSLGSVQAPSYGARPVSSAASVYAGAGGSGSRISVSRSTSFRGGMGSGGLAAGIAGG
M.FTTRSTFSTNYRSLGSVQA.SYGA.PVSS..SVYAG..GSGSRIS.S.STSF.GGMGSGGL.AG.AGG
RetrocopyMNFTTRSTFSTNYRSLGSVQASSYGAQPVSSMTSVYAGTRGSGSRISMSHSTSFWGGMGSGGLSAGMAGG
ParentalLAGVGGIQNEKETMQSLNDRLASYLDRVRSLETENRRLESKIREHLEKKGPQVRDWSHYFKIIEDLRAQI
LA..GGIQNEKETMQSLND.LASYL.RVR.LE.EN..LESKI.EHLE.KGPQ.RDWS.YF..I.DLRAQI
RetrocopyLARMGGIQNEKETMQSLNDCLASYLNRVRNLEMENWKLESKIQEHLE-KGPQFRDWSRYF*TIKDLRAQI
ParentalFANTVDNARIVLQIDNARLAADDFRVKYETELAMRQSVENDIHGLRKVIDDTNVTRLQLETEIEALKEEL
FANTV.................DFRVKYETELA...SVEN.IHGL.KVIDDT.VTRLQLETEIEA.KEEL
RetrocopyFANTVXXXXXXXXXXXXXXXXXDFRVKYETELAVHWSVENNIHGLHKVIDDTSVTRLQLETEIEACKEEL
ParentalLFMKKNHEEEVKGLQAQIASSGLTVEV
LFMKKNHE.E.KGLQAQIASSGLTVEV
RetrocopyLFMKKNHEGELKGLQAQIASSGLTVEV

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_1346 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 15 parental genes, and 325 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000119812 retrocopies
Canis familiaris ENSCAFG0000000715410 retrocopies
Callithrix jacchus ENSCJAG0000001816529 retrocopies
Cavia porcellus ENSCPOG000000026181 retrocopy
Homo sapiens ENSG0000011105760 retrocopies
Gorilla gorilla ENSGGOG0000001015728 retrocopies
Macropus eugenii ENSMEUG0000001226214 retrocopies
Myotis lucifugus ENSMLUG000000224398 retrocopies
Macaca mulatta ENSMMUG000000319114 retrocopies
Mustela putorius furoENSMPUG000000063692 retrocopies
Nomascus leucogenys ENSNLEG00000017732 45 retrocopies
Oryctolagus cuniculus ENSOCUG000000276911 retrocopy
Pongo abelii ENSPPYG0000000456360 retrocopies
Pan troglodytes ENSPTRG0000000499658 retrocopies
Rattus norvegicus ENSRNOG000000473933 retrocopies



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