RetrogeneDB ID: | retro_btau_785 | ||
Retrocopylocation | Organism: | Cow (Bos taurus) | |
| Coordinates: | 19:11925929..11926436(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | IFI30 | ||
| Ensembl ID: | ENSBTAG00000018349 | ||
| Aliases: | None | ||
| Description: | gamma-interferon-inducible lysosomal thiol reductase precursor [Source:RefSeq peptide;Acc:NP_001094721] |
Retrocopy-Parental alignment summary:
>retro_btau_785
CGAGAGCTCTTCCCATAGCAACTGATGGTCCAGAAAATCCTCAGTGTCATTTTGGTGGCCTACAGAAATGCTCAGGAACA
AAACGTCAGTGGCGTGTGGGAGTTCACGTGTCACCATGGTGAGCAGGAGTGCAGCTTAGCAAGGTGGAGGCCTGCTGGTT
GGACCAGCTGGAGAACTCCGTCTTCCTGATCATTGTCTGCATGGAGGAAATGGATGACATGGAGAAAAATCTGAAGCCAT
GCCGCCTGCAGATCTAAGCTCCCAAGGTGTCCCCGGACTCCATGATGGCATGTGCAACGGGAGATGGTGGCAGGCAGCTG
TTATACACCGAAGCCCAGCTCACAGACACTCTGCGGCCTCCCCACGAATACGTGCCCTAGGTTTCTGACAAGGGGAAATC
CATAAAGGAGAAGGACCAGCTAGCTCTTCATCTGCTGACTGTATGTGGATGAGATGTCAGATGTCTGCCAACTCATAGCC
AACTTTCCCAAGGATGCTTGCTTCAAG
CGAGAGCTCTTCCCATAGCAACTGATGGTCCAGAAAATCCTCAGTGTCATTTTGGTGGCCTACAGAAATGCTCAGGAACA
AAACGTCAGTGGCGTGTGGGAGTTCACGTGTCACCATGGTGAGCAGGAGTGCAGCTTAGCAAGGTGGAGGCCTGCTGGTT
GGACCAGCTGGAGAACTCCGTCTTCCTGATCATTGTCTGCATGGAGGAAATGGATGACATGGAGAAAAATCTGAAGCCAT
GCCGCCTGCAGATCTAAGCTCCCAAGGTGTCCCCGGACTCCATGATGGCATGTGCAACGGGAGATGGTGGCAGGCAGCTG
TTATACACCGAAGCCCAGCTCACAGACACTCTGCGGCCTCCCCACGAATACGTGCCCTAGGTTTCTGACAAGGGGAAATC
CATAAAGGAGAAGGACCAGCTAGCTCTTCATCTGCTGACTGTATGTGGATGAGATGTCAGATGTCTGCCAACTCATAGCC
AACTTTCCCAAGGATGCTTGCTTCAAG
ORF - retro_btau_785 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.58 % |
| Parental protein coverage: | 69.67 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | RELFPTWLMVLEILNVTLVPYGNAQERNVSGKWEFTCQHGERECLL-NKVEACLLDQLEQKIAFLTIVCL |
| RELFP..LMV..IL.V.LV.Y.NAQE.NVSG.WEFTC.HGE.EC.L..KVEAC.LDQLE....FL.IVC. | |
| Retrocopy | RELFP*QLMVQKILSVILVAYRNAQEQNVSGVWEFTCHHGEQECSL<SKVEACWLDQLENSV-FLIIVCM |
| Parental | EEMDDMEQNLKPC-LQIYAPKVSADSIMECATGNRGMQLLHINAQLTDALRPPHKYVPWVVVNGEHMKDE |
| EEMDDME.NLKPC.LQI.APKVS.DS.M.CATG..G.QLL...AQLTD.LRPPH.YVP.V...G...K.E | |
| Retrocopy | EEMDDMEKNLKPCRLQI*APKVSPDSMMACATGDGGRQLLYTEAQLTDTLRPPHEYVP*VSDKGKSIK-E |
| Parental | EHLLHL-VCRLYQGQKPDVCQLTAELSKEVHFK |
| ...L.L..C.LY.....DVCQL.A...K...FK | |
| Retrocopy | KDQLAL>IC*LYVDEMSDVCQLIANFPKDACFK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(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 .07 RPM | 2 .81 RPM |
| ERP005899_muscle | 0 .00 RPM | 46 .77 RPM |
| SRP017611_brain | 0 .00 RPM | 0 .50 RPM |
| SRP017611_kidney | 0 .00 RPM | 6 .93 RPM |
| SRP017611_liver | 0 .00 RPM | 2 .79 RPM |
| SRP030211_testis | 0 .03 RPM | 4 .23 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_785 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_785 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_785 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000018349 | 1 retrocopy |
retro_btau_785 ,
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