RetrogeneDB ID: | retro_btau_475 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 12:68077098..68077958(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000025307 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MOK | ||
| Ensembl ID: | ENSBTAG00000007008 | ||
| Aliases: | MOK, RAGE | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_btau_475
AACCAGAAAATGAAGCAGGATGTCCTGAAATTAGGGGACTTGAGGTCGTGCTGGAGCGTGTACTCTAAGCAGCCTTACAT
GGAGTACATCTCCACCCGCTGGTACCAGCCCGAGTGTCTCCTCACCAATGGCTTCTACAGCTACACAATGGACCTGTGGA
GTGTGGGCTACAAGCTGTACAAGATGGGCAGCCTGTAGCCTCTCTTCCCCAGAGCCAACGAGCTGGTCCAGATCTCAAGG
AGCCACGATGTCATGGGCACGCCTGCGGAGAAGACCCTCACCAAGTTCAAACAATCCAGAGATATGAGTTTTTATTTTCC
TTTTAAAAAGGAATCAGGGATACCTCTACTGACAACCAACCTGTCCCCGCAATGGCTCTCCCTCCTGCACGGAAGTGGTG
GCCTATGAGCCTGACGAGAGAATCACTGGCCACCAGGTCCTGCAGCACCCTACTTCCAGGAGCAGAGGGCTGCTGAGAAG
CAAGCTCTGGCCAAGGACAGGCGAAAGGCTGTCTTCTCTGAGCGCCCCATGGCACCAGAACTACTCAGCAACACCTGGCA
GACGGCACAGGAGGCCCAGAGGCAGAAACAGCCCCTCCCTGAGGCCTGAGGAGGACCAGCCCCGGAGACAGGGACCCACC
TACCTGATGGAGCTGCCCAGGCTCAAGCTGTCGGGAGCAACCAAGCTAGCCTCGTACTCCAGCCCAGCACTGCAGTCAGT
GTTCGCCCGAAGGTACCACTGCTGAGACCCCTGAAGCCCTGAAGCGTGTCGGTGGAGCCCAGAAGACAGACATGCAGAAG
GACACCAAGCCCAGCCTGAAACAGTACCGCCTGCCCATGACAGAGCAGAGAGGTAGGGGC
ORF - retro_btau_475 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.56 % |
| Parental protein coverage: | 65.82 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | NILVKRDVLKLGDFGSCRSVYSKQPYTEYISTRWYRAPECLLTDGFYGFKMDLWSAGCVLYEMASLQPLF |
| N...K.DVLKLGD..SC.SVYSKQPY.EYISTRWY..PECLLT.GFY...MDLWS.G..LY.M.SL.PLF | |
| Retrocopy | NQKMKQDVLKLGDLRSCWSVYSKQPYMEYISTRWYQ-PECLLTNGFYSYTMDLWSVGYKLYKMGSL*PLF |
| Parental | PGANELDQISRIHDVMGTPAEKTLTKFKQSRAMSFDFPFKKGSGIPLLTTSLSPQCLSLLHA-MVAYDPD |
| P.ANEL.QISR.HDVMGTPAEKTLTKFKQSR.MSF.FPFKK.SGIPLLTT.LSPQ.LSLLH...VAY.PD | |
| Retrocopy | PRANELVQISRSHDVMGTPAEKTLTKFKQSRDMSFYFPFKKESGIPLLTTNLSPQWLSLLHG>VVAYEPD |
| Parental | ERITAHQALQHP-YFQEQRAAEKQALARARWKASAPFPECPTAPEL-SSAWQTAQEG-RKQKQPP-RPEE |
| ERIT.HQ.LQHP.YFQEQRAAEKQALA..R.KA...F.E.P.APEL.S..WQTAQE..R.....P.RPEE | |
| Retrocopy | ERITGHQVLQHP<YFQEQRAAEKQALAKDRRKAV--FSERPMAPELLSNTWQTAQEAQRQKQPLP>RPEE |
| Parental | NHPRRPGPACLMELPRLKLSGAAKLASYSSPALPSVFL-PKVPL---LRP-LKCVGAAQKTETQKDIKPS |
| ..PRR.GP..LMELPRLKLSGA.KLASYSSPAL.SVF..PKVPL...L.P.LK.VG.AQKT..QKD.KPS | |
| Retrocopy | DQPRRQGPTYLMELPRLKLSGATKLASYSSPALQSVFA<PKVPLLRPLKP<LKRVGGAQKTDMQKDTKPS |
| Parental | LKQYRLPTIERRGGG |
| LKQYRLP..E.RG.G | |
| Retrocopy | LKQYRLPMTEQRGRG |
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 .00 RPM | 0 .43 RPM |
| ERP005899_muscle | 0 .00 RPM | 0 .84 RPM |
| SRP017611_brain | 0 .00 RPM | 9 .91 RPM |
| SRP017611_kidney | 0 .00 RPM | 6 .88 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .15 RPM |
| SRP030211_testis | 0 .00 RPM | 84 .63 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_475 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_475 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_475 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 | ENSBTAG00000007008 | 1 retrocopy |
retro_btau_475 ,
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