RetrogeneDB ID:

retro_nleu_2238

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397337.1:10991153..10992326(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HSPD1
Ensembl ID:ENSNLEG00000006874
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_2238
ATGCTTCGATTACCCACAGTCTTTCGCCAGATGAGACCGGTATCCAGGCTACTGGCTCCTCATCTCACTCGGACTGATGG
TAAAGATGTAAAATTTGGTGCCGATGTCTGAGTCTTAATGCTTCAAAGTGCAGACCTTTTAGTCGATGCTGTATCCATTA
CAATGGGGCCAAATGGAGGAACAGTAATTATTGAACATAGCTGGGGAAGTCCCGAAGTAACAAAAGATGGTGTGACTGAT
GCAAAGTCAATTGACTTAAAGGATAAATATAAAAACATTGGAGCTAAACTTGTCCAAGATGTTGCCAATAACACAAATGA
AGAGACTGGGGATGGCACTATCACTGCTACTGTACTGGTAAGCTCTATTTCCAAGTAAGGCTTCCAGAAGCTTAGCAAAG
GTGCTAATCCAGTGGAAATCAAGAGAGGTGTGATGTTAGCTGTTGATGCTGTAATTGCTGAACTTAAAAAGCAGTCTAAA
CCTGTTACCAAACCTGAAGAAATTGAGCAGCTTGCTACAATTTCTGCAAATGGAGACAAAGAAATTGGTAACATCATCTC
TGATGCAACGAAAAAGGTTGGAAGAAAGGGTGTCATCACAGTAAAGGATGGAAAAACACTGACTGATGAATTAGAAATTG
TTGAAGGCATGAATATTTGACCGAGGATATATTTCTCCATACTTTATTAATACATCAAAAGGTGAGAAATGTGAATTCCA
GGATGCCTATGTTCTGTTGCGTGAAAAGAAAATTTCCAGTGTCCAGTCCATTGTACTTGCTCTTGAAATTGCCAATGCTC
ACTGTAAGCCTTTGGTCATAATTGCTGAGGACATTGATGGAGAAGCTCTAAGTACACTCATCTTGAATAGGCTAAAGGTT
GGTCTTCAGGTTGTGGCAGTCAAAGCTCCAGGGTTTGGTGACAATAGAAAGAACCAGCTTAAAGATATGGTTATTGCTAC
TGGTGGTGCAGTGTTTGGAGAAGAAGGCTGACACTAAATCTTGAAGATGTTCAGCCTCATGACTTAGGAGAAGTTGGAGA
GGTCACTGTGATCAAAGATGATGCCATGCTCTTAAAAGGAAAAGGTAACAAGGCTCAAATTGAAAAATGTATTCAAGAAA
TCATTGACCAGTCAGATGTCACAACTAGTGAGTATGAAAAGGAAAAACTGAAT

ORF - retro_nleu_2238 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.09 %
Parental protein coverage: 68.35 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMLRLPTVFRQMRPVSRVLAPHLTRAYAKDVKFGADARALMLQGVDLLADAVAVTMGPKGRTVIIEQSWGS
MLRLPTVFRQMRPVSR.LAPHLTR...KDVKFGAD...LMLQ..DLL.DAV..TMGP.G.TVIIE.SWGS
RetrocopyMLRLPTVFRQMRPVSRLLAPHLTRTDGKDVKFGADV*VLMLQSADLLVDAVSITMGPNGGTVIIEHSWGS
ParentalPKVTKDGVTVAKSIDLKDKYKNIGAKLVQDVANNTNEEAGDGTTTATVLARSIAKEGFEKISKGANPVEI
P.VTKDGVT.AKSIDLKDKYKNIGAKLVQDVANNTNEE.GDGT.TATVL..SI.K.GF.K.SKGANPVEI
RetrocopyPEVTKDGVTDAKSIDLKDKYKNIGAKLVQDVANNTNEETGDGTITATVLVSSISK*GFQKLSKGANPVEI
ParentalRRGVMLAVDAVIAELKKQSKPVTTPEEIAQVATISANGDKEIGNIISDAMKKVGRKGVITVKASDGKTLN
.RGVMLAVDAVIAELKKQSKPVT.PEEI.Q.ATISANGDKEIGNIISDA.KKVGRKGVITVK..DGKTL.
RetrocopyKRGVMLAVDAVIAELKKQSKPVTKPEEIEQLATISANGDKEIGNIISDATKKVGRKGVITVK--DGKTLT
ParentalDELEIIEGMK-FDRGYISPYFINTSKGQKCEFQDAYVLLSEKKISSVQSIVPALEIANAHRKPLVIIAED
DELEI.EGM..FDRGYISPYFINTSKG.KCEFQDAYVLL.EKKISSVQSIV.ALEIANAH.KPLVIIAED
RetrocopyDELEIVEGMN>FDRGYISPYFINTSKGEKCEFQDAYVLLREKKISSVQSIVLALEIANAHCKPLVIIAED
ParentalVDGEALSTLVLNRLKVGLQVVAVKAPGFGDNRKNQLKDMAIATGGAVFGEEG-LTLNLEDVQPHDLGKVG
.DGEALSTL.LNRLKVGLQVVAVKAPGFGDNRKNQLKDM.IATGGAVFGEEG.LTLNLEDVQPHDLG.VG
RetrocopyIDGEALSTLILNRLKVGLQVVAVKAPGFGDNRKNQLKDMVIATGGAVFGEEG<LTLNLEDVQPHDLGEVG
ParentalEVIVTKDDAMLLKGKGDKAQIEKRIQEIIEQLDVTTSEYEKEKLN
EV.V.KDDAMLLKGKG.KAQIEK.IQEII.Q.DVTTSEYEKEKLN
RetrocopyEVTVIKDDAMLLKGKGNKAQIEKCIQEIIDQSDVTTSEYEKEKLN

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_2238 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 18 parental genes, and 74 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000137701 retrocopy
Canis familiaris ENSCAFG000000108654 retrocopies
Callithrix jacchus ENSCJAG000000039906 retrocopies
Echinops telfairi ENSETEG000000091844 retrocopies
Homo sapiens ENSG000001443817 retrocopies
Gorilla gorilla ENSGGOG000000082676 retrocopies
Loxodonta africana ENSLAFG000000000531 retrocopy
Macropus eugenii ENSMEUG000000119872 retrocopies
Myotis lucifugus ENSMLUG000000008714 retrocopies
Macaca mulatta ENSMMUG000000104891 retrocopy
Monodelphis domestica ENSMODG000000122893 retrocopies
Mustela putorius furoENSMPUG000000078183 retrocopies
Mus musculus ENSMUSG000000259805 retrocopies
Nomascus leucogenys ENSNLEG00000006874 7 retrocopies
Otolemur garnettii ENSOGAG000000340535 retrocopies
Pongo abelii ENSPPYG000000130465 retrocopies
Rattus norvegicus ENSRNOG000000145259 retrocopies
Xenopus tropicalis ENSXETG000000075091 retrocopy



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