RetrogeneDB ID: | retro_btau_1688 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 9:97309642..97310508(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BT.45558 | ||
| Ensembl ID: | ENSBTAG00000014417 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_btau_1688
AGGTGCAAGTTCTTCAGTCTGACCAAGACGCCAGAGGATTACACCATCATTGTCGATGAGGAGGGCTTCCTGGAACTGCC
CTCCTCAGAACACCTGGGTGTGCCCGATGCCACCTGGCTGGCCCTCAATGTGGTGTCCAGGGCGGCAGCTTCTCCAGTTT
CCAGCCCACCAGCATGACCAAGATCGTCAAGTCAGTCATCACCCCACTGGCTGATCAGAACATCTCTGTGTCCACGCTGT
CCACCTACCAGATGGACTTCATCCTGGTGCATGAGTAGGACCTGCCCTTCATCACCCACACTTTGTCATCAGAGTTAACC
ACCCTGCACGTCATCAATAGCGAGACGCTGGCAGCTGAGAACCTTGGCATTACACACTGCTTCATGAAGCCCAAGGCGGT
CCAGAGGCCCGTCATCCACCCACTGTCCACCCCAAGCAACAGGTTCTGTGTCACCAGCCTGGACTCTGACATACCGCCCA
CTGTTGCCACACTCCTTATGGACGTCACGTTCTACTCCAGTGGACTGAAGGACCCCCTGGTGTCCTCCGGCGATAACTGT
GGCCACATCCGCTTCTTCTCCTTCTCCCTGATAAAGGGCTACATCTCCCTGGTGAGGGACAAGCAGACCCAGCAGAGGTT
TCCTAGTAATTTGTTGTTCACAAGCGCATCTGGGGGGCTCTGGAAGATGGTGAGGATTGGAGGATAGGCCCCGGGATTTG
ATAAGTGCTTCGAAGTGGCCTGGATCGCTGAGCCTTTGGCTGCCGCAGACATCCAAACCTACTACATCAGCACCTTCAAG
TTCCTCCACACACTGGTGCCGGAAGAAAACATCAGCACCCTGAAAGTCAGCCAAGCAGAAAAATAT
ORF - retro_btau_1688 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.59 % |
| Parental protein coverage: | 88.48 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | RCKFFSLTETPEDYTIIVDEEGFLELPSSEHLSVADATWLALNVVSG-GGSFSSSQPIGVTKIAKSVIAP |
| RCKFFSLT.TPEDYTIIVDEEGFLELPSSEHL.V.DATWLALNVVS..GGSFSS.QP...TKI.KSVI.P | |
| Retrocopy | RCKFFSLTKTPEDYTIIVDEEGFLELPSSEHLGVPDATWLALNVVSR<GGSFSSFQPTSMTKIVKSVITP |
| Parental | LADQNISVFMLSTYQTDFILVRERDLPFVTHTLSSEFTILRVVNGETVAAENLGITNGFVKPKMVQRPVI |
| LADQNISV..LSTYQ.DFILV.E.DLPF.THTLSSE.T.L.V.N.ET.AAENLGIT..F.KPK.VQRPVI | |
| Retrocopy | LADQNISVSTLSTYQMDFILVHE*DLPFITHTLSSELTTLHVINSETLAAENLGITHCFMKPKAVQRPVI |
| Parental | HPLSSPSNRFCVTSLDPDTLPTVATLLMDVMFYSNGVKDPL-ASGDDCDHIRFFSFSLIEGYISLVMDVQ |
| HPLS.PSNRFCVTSLD.D..PTVATLLMDV.FYS.G.KDPL..SGD.C.HIRFFSFSLI.GYISLV.D.Q | |
| Retrocopy | HPLSTPSNRFCVTSLDSDIPPTVATLLMDVTFYSSGLKDPLVSSGDNCGHIRFFSFSLIKGYISLVRDKQ |
| Parental | TQQRFPSNLLFTSASGELWKMVRIGGQPLGFDECGIVAQISEPLAAADIPAYYISTFKFDHALVPEENIN |
| TQQRFPSNLLFTSASG.LWKMVRIGG...GFD.C..VA.I.EPLAAADI..YYISTFKF.H.LVPEENI. | |
| Retrocopy | TQQRFPSNLLFTSASGGLWKMVRIGG*APGFDKCFEVAWIAEPLAAADIQTYYISTFKFLHTLVPEENI- |
| Parental | GVISALKVSQAEKH |
| ...S.LKVSQAEK. | |
| Retrocopy | ---STLKVSQAEKY |
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 .22 RPM |
| ERP005899_muscle | 0 .00 RPM | 13 .04 RPM |
| SRP017611_brain | 0 .00 RPM | 36 .22 RPM |
| SRP017611_kidney | 0 .00 RPM | 23 .77 RPM |
| SRP017611_liver | 0 .00 RPM | 1 .21 RPM |
| SRP030211_testis | 0 .00 RPM | 12 .12 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1688 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1688 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1688 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 | ENSBTAG00000014417 | 1 retrocopy |
retro_btau_1688 ,
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