RetrogeneDB ID:

retro_btau_880

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:2:94064787..94065117(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DSTN
Ensembl ID:ENSBTAG00000015434
Aliases:None
Description:Destrin [Source:UniProtKB/Swiss-Prot;Acc:Q5E9D5]


Retrocopy-Parental alignment summary:






>retro_btau_880
TTGGTGGGAGATGTTGGTGTCACCAAAACCGATCCTTTGAAGCATTTTGTGGGGATGCTTCCTGAAAAAGATTGTTGATA
TGCTCTGTATGATACAGGCTTTGAAACAAAGGAATCCAGAAAAGAGGAGTTGATGTTTTTCCTGTGGGCACCAGAACTGT
CTCCTCTGAAGAGTAAAATGATCTATGCGAGCTCCAAGGATGCCATCAGAAGGAAGTTCCAAGGCATAAAACACAAATGT
CAAGCAAATAGGCCAGAAAACCTCAATCGAGCTTGTACTGCTGAAAAGCTAGGTGGATCCCTAATTGTAGTTTTTGAAGG
ATGTCCTGTG

ORF - retro_btau_880 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.18 %
Parental protein coverage: 66.67 %
Number of stop codons detected: 1
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalLVGDVGVTITDPFKHFVGMLPEKDCRYALYDASFETKESRKEELMFFLWAPELAPLKSKMIYASSKDAIK
LVGDVGVT.TDP.KHFVGMLPEKDC.YALYD..FETKESRKEELMFFLWAPEL.PLKSKMIYASSKDAI.
RetrocopyLVGDVGVTKTDPLKHFVGMLPEKDC*YALYDTGFETKESRKEELMFFLWAPELSPLKSKMIYASSKDAIR
ParentalKKFQGIKHECQANGPEDLNRACIAEKLGGSLIVAFEGCPV
.KFQGIKH.CQAN.PE.LNRAC.AEKLGGSLIV.FEGCPV
RetrocopyRKFQGIKHKCQANRPENLNRACTAEKLGGSLIVVFEGCPV

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






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
ERP005899_liver 0 .00 RPM 44 .77 RPM
ERP005899_muscle 0 .26 RPM 172 .30 RPM
SRP017611_brain 0 .05 RPM 92 .91 RPM
SRP017611_kidney 0 .00 RPM 401 .21 RPM
SRP017611_liver 0 .00 RPM 46 .59 RPM
SRP030211_testis 0 .02 RPM 82 .60 RPM

ChIP-Seq - click to see more details

Bos taurus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_btau_880 retrocopy.

TSS - click to see more details

Bos taurus was not studied using FANTOM5 data.

Lab - click to see more details

retro_btau_880 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_880 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 19 parental genes, and 32 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG00000015434 1 retrocopy
retro_btau_880 ,
Bos taurus ENSBTAG000000214551 retrocopy
retro_btau_1382,
Choloepus hoffmanni ENSCHOG000000031105 retrocopies
retro_chof_1308, retro_chof_1656, retro_chof_1758, retro_chof_2297, retro_chof_72,
Cavia porcellus ENSCPOG000000055732 retrocopies
retro_cpor_700, retro_cpor_812,
Dasypus novemcinctus ENSDNOG000000009341 retrocopy
retro_dnov_24,
Homo sapiens ENSG000001258681 retrocopy
retro_hsap_952,
Gorilla gorilla ENSGGOG000000090071 retrocopy
retro_ggor_768,
Microcebus murinus ENSMICG000000136871 retrocopy
retro_mmur_765,
Macaca mulatta ENSMMUG000000137861 retrocopy
retro_mmul_782,
Mus musculus ENSMUSG000000159321 retrocopy
retro_mmus_3314,
Nomascus leucogenys ENSNLEG000000096791 retrocopy
retro_nleu_2458,
Oryctolagus cuniculus ENSOCUG000000274561 retrocopy
retro_ocun_1891,
Ochotona princeps ENSOPRG000000009762 retrocopies
retro_opri_1078, retro_opri_696,
Pongo abelii ENSPPYG000000107271 retrocopy
retro_pabe_812,
Pan troglodytes ENSPTRG000000132751 retrocopy
retro_ptro_659,
Pteropus vampyrus ENSPVAG000000004201 retrocopy
retro_pvam_1275,
Rattus norvegicus ENSRNOG000000059241 retrocopy
retro_rnor_1710,
Tupaia belangeri ENSTBEG000000176348 retrocopies
retro_tbel_1206, retro_tbel_1977, retro_tbel_2425, retro_tbel_2880, retro_tbel_2881, retro_tbel_4020, retro_tbel_679, retro_tbel_851,
Tursiops truncatus ENSTTRG000000072911 retrocopy
retro_ttru_1503,


Copyright © RetrogeneDB 2014-2017