RetrogeneDB ID:

retro_tbel_3800

Retrocopy
location
Organism:Treeshrew (Tupaia belangeri)
Coordinates:scaffold_1596:134058..134615(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CRYZ
Ensembl ID:ENSTBEG00000016750
Aliases:None
Description:crystallin, zeta (quinone reductase) [Source:HGNC Symbol;Acc:2419]


Retrocopy-Parental alignment summary:






>retro_tbel_3800
GCCCGTGTGAAGGCTGGAGAAAGTATTCTGGTTCACGGGGCTAGTGGAGGAGTTGGAATAGCAGCATGCCAGATTGTCAG
AGCTTATGGTTTAAAGGTTTTGGGCACAGCCGGTACTGAGGAAGGACGAAGGACCGTTTTGCAAAATGGAGCCCATGAAG
TGTTTGATCACAGAGAAGTTAATTATATCGATAAAATAAAGAAATCTGTTGGTGAAAAAGGAATTAATGTGATTACTGAA
ATGCTAGCTAATGTAAATCTTAGTAATGATTTGAATCTTCTTTCACATGGAGGAGGAGTAATAGTTGTTAGCAGCAGAGG
TCCTATTGAAATAAACCCAGGAGACACCATGACAAAGGAGTCCAGTATAACTGGAGCTACTCTCTTTTCATCAACCAAAC
AGGAATTTGAGGAATGTGCCTCGGCCCTTGAAGCTAGAGTGGAAATTCCTTGGTTGAAACCTAAAGTAAACCTCAGTTTA
CTTTGGAGTAGGTGGCCCAAGCTCATGAAAATATCATTCATGGCAGTGGAGCTACTGGAAAAATGATTCTTCTCTTA

ORF - retro_tbel_3800 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.77 %
Parental protein coverage: 56.53 %
Number of stop codons detected: 1
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalARVKAGESVLVHGASGGVGIAACQIARAYGLKVLGTGGTEEGRRTVLQNGAHEVFDHREVNYIDKIKKSV
ARVKAGES.LVHGASGGVGIAACQI.RAYGLKVLGT.GTEEGRRTVLQNGAHEVFDHREVNYIDKIKKSV
RetrocopyARVKAGESILVHGASGGVGIAACQIVRAYGLKVLGTAGTEEGRRTVLQNGAHEVFDHREVNYIDKIKKSV
ParentalGEKGINVIIEMLANVNLSNDLNLLSHGGRVIVVGSRGPIEINPRDTMTKESSIIGTTLFSTTKEEFEECA
GEKGINVI.EMLANVNLSNDLNLLSHGG.VIVV.SRGPIEINP.DTMTKESSI.G.TLFS.TK.EFEECA
RetrocopyGEKGINVITEMLANVNLSNDLNLLSHGGGVIVVSSRGPIEINPGDTMTKESSITGATLFSSTKQEFEECA
ParentalSALEAGMEIGWLKPIVG-SQFPLEKVAQAHEDIIHGSGATGKMILLL
SALEA..EI.WLKP.V...QF.LE.VAQAHE.IIHGSGATGKMILLL
RetrocopySALEARVEIPWLKPKVN<PQFTLE*VAQAHENIIHGSGATGKMILLL

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






RNA-Seq - click to see more details

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tupaia belangeri was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_tbel_3800 retrocopy.

TSS - click to see more details

Tupaia belangeri was not studied using FANTOM5 data.

Lab - click to see more details

retro_tbel_3800 was not experimentally validated.

Retrocopy orthology:
Tupaia belangeri 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 16 parental genes, and 23 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000031621 retrocopy
retro_btau_1433,
Canis familiaris ENSCAFG000000204041 retrocopy
retro_cfam_870,
Choloepus hoffmanni ENSCHOG000000051671 retrocopy
retro_chof_1772,
Felis catus ENSFCAG000000306261 retrocopy
retro_fcat_1907,
Homo sapiens ENSG000001167911 retrocopy
retro_hsap_3884,
Loxodonta africana ENSLAFG000000113711 retrocopy
retro_lafr_527,
Macaca mulatta ENSMMUG000000145932 retrocopies
retro_mmul_1026, retro_mmul_1728,
Mustela putorius furoENSMPUG000000109691 retrocopy
retro_mputfur_119,
Mus musculus ENSMUSG000000281991 retrocopy
retro_mmus_1314,
Nomascus leucogenys ENSNLEG000000095432 retrocopies
retro_nleu_1890, retro_nleu_3115,
Otolemur garnettii ENSOGAG000000115861 retrocopy
retro_ogar_179,
Pongo abelii ENSPPYG000000012352 retrocopies
retro_pabe_1909, retro_pabe_3165,
Pan troglodytes ENSPTRG000000008651 retrocopy
retro_ptro_1598,
Tupaia belangeri ENSTBEG00000016750 3 retrocopies
retro_tbel_1665, retro_tbel_2353, retro_tbel_3800 ,
Tarsius syrichta ENSTSYG000000041932 retrocopies
retro_tsyr_1218, retro_tsyr_1884,
Tursiops truncatus ENSTTRG000000104712 retrocopies
retro_ttru_555, retro_ttru_958,


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