RetrogeneDB ID: | retro_btau_41 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 7:41404241..41406959(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000039711 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSBTAG00000040411 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_btau_41
GTGTCACATTTGAAGACGAGGGGCACTGAGGATGAGGAATCAACTGAAAAGTATGAAAATATTCGAAATGCAGAATCTGT
GTGGCCAAAAGTGGAAGGTCTTCACAAGGATCATATGCAGGAGTCTAAGGTTGGTGAAACTTGTGATTGGGATAGCAAGG
TAGAAAATCAGATGGACAAGCCTGAGGGAAAAAGAATGAAGGAAGACAAAAGTGGCTTCAGGGAAAAGATTGGCAAAGCC
AGGAATACAGCAAATATAAAGACAGAACAGGAAGATGAGGCATCTGAGAAAAGCTTACATCTGAGCTCAAAATATGTTAC
ACACCAGACTGTCCCTATAGAACAGAAAAACAGTGAACAAGTCAAATGTGTGGAGAGCATTAATGGAAACTCTCATCCCA
GTCTACAGCAAAAAGCCAGTGCTGTTAAGAAATCACATAAATGTGATGACTGTGGGAAATCCTTCAAATATAATTCCCGA
CTTATTCAACATAAAATTATGCACACTGGTGAAAAACGCTATGAGTGCGATGACTGTGGAGGGACTTTCCGGAGCAGCTC
AAGCCTTCGAGTCCACAAGAGGATCCATACTGGGGAGAAGCCGTACAAGTGTGAGGAATGTGGGAAAGCCTACATGTCTT
ATTCCAGCCTTATAAACCACAAAAGCACCCATTCTGGAGAAAAGAACTGTAAGTGTGATGAGTGTGGAAAATCCTTCAAT
TATAGCTCAGTTTTGGATCAGCATAAGAGAATTCACACTGGGGAGAAGCCCTATGAGTGTGGTGAGTGTGGGAAAGCCTT
CAGGAACAGCTCTGGCCTTAGAGTCCACAAAAGGATCCACACAGGTGAGAAGCCCTATGAATGTGACATCTGTGGGAAAA
CCTTCAGTAATAGCTCTGGCCTTAGAGTCCACAAAAGGATTCATACAGGGGAGAAACCCTATGAATGTGATGAGTGTGGG
AAGGCCTTCATTACCTGCAGAACACTTCTAAATCATAAAAGCATCCACTTTGGAGATAAACCTTATAAATGTGATGAATG
TGAAAAATCATTTAATTATAGTTCTCTCCTCATTCAACATAAAGTTATCCACACTGGAGAGAAACCTTATGAATGTGATG
AATGTGGGAAGGCTTTCAGGAATAGTTCAGGCCTTATTGTGCATAAAAGGATCCACACAGGAGAGAAACCTTACAAATGT
GATGTCTGTGGCAAAGCATTCAGCTATAGCTCAGGCCTGGCAGTCCATAAAAGCATTCACCCTGGGAAGAAAGCCCATGA
ATGTAAGGAGTGTGGAAAATCATTCAGCTATAACTCACTTCTTCTTCAACACAGAACAATTCACACTGGAGAGAGACCTT
ATGTATGTGATGTCTGTGGAAAAACTTTCAGAAACAATTCAGGACTCAAAGTCCACAGGCGACTCCATACTGGGGAAAAA
CCATATAAGTGTGATGTGTGTGGAAAAGCCTATATCTCACGCTCTAGCCTTAAAAACCACAAAGGAATCCATCTTGGGGA
GAAGCCCTATAAATGTAGTTATTGTGAAAAATCCTTCAATTACAGCTCTGCCCTTGAACAACATAAAAGGATTCATACAA
GGGAGAAACCCTTTGGGTGTGATGAGTGTGGAAAAGCCTTCAGAAATAATTCAGGCCTTAAAGTCCATAAACGAATCCAC
ACTGGGGAGAGACCTTACAAATGTGAAGAATGTGGGAAGGCCTACATCTCACTTTCAAGCCTTATAAATCATAAAAGTGT
ACACCCTGGGGAAAAGCCCTATAAGTGTGATGAGTGTGAGAAAGCCTTTATCACATACCGAACCCTTATAAATCACAAAA
AAATTCATCTTGGGGAGAAGCCCTACAAATGCGATGTGTGTGAGAAATCTTTTAACTACACCTCACTTCTTTCTCAACAC
AGAAGGGTCCACACTAGAGAGAAACCTTATGAATGTGACAGATGTGAAAAGGTCTTCAGAAACAACTCGAGCCTTAAAGT
GCATAAAAGAATTCATACTGGTGAGAAGCCCTATAAATGTGATGTGTGTGGAAAAGCCTACATCTCACACTCAAGCCTTA
TCAACCATAAAAGTACCCACCCTGGCAAGACCCCCTACACATGTGATGAATGTGGGAAAGCTTTTTTCTCAAACAGAACT
CTTATAAGCCATAAAAGAGTCCATCTTGGGGAGAAACCCTTCAAATGTGTTGAATGTGGGAAGTCTTTCAGTTATAGCTC
ACTCCTTTCCCAACACAAGAGGATTCATACGGGGGAAAAACCCTATGTGTGTGATGGCTGTGGGAAGGCATTCAGGAACA
GCTCAGGCCTCACAGTGCATAAAAGGATACACACAGGTGAGAAACCCTATGGATGTGATGAGTGTGGGAAAGCATACATC
TCACACTCGAGTCTTATCAACCATAAAAGTGTCCATAGCGGGCAGCAGCCCTATAATTGTGAGTGTGGGAAATCCTTCAA
TTATAGATCAGTCCTTGACCAACACAAAAGGATCCACACTGGAAAGAAGCTATACCAATGTAACGAGTGTGGGAAGGCTT
TCAATATCAGATCAAATCTCACCAAGCATAAAAGAATCCATACTGGAGGGGAATATTTAAGTGTGACAAATATGGGAAGT
CATAGTGGCACATCACAGAAGAGAACTCATGAGGGAGGGAATGCTCTGGATGGGACCAGGATGAGCATGTCTCTGTAG
ORF - retro_btau_41 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.77 % |
| Parental protein coverage: | 66.24 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | KAFHAKSALLTHQTIHTGQKPYKCDECGKAFCAKSVLSRHQTIHTGEKPYKCDECGKAFRLKSFLLSHQT |
| K..H..S...THQT....QK......C.......S..S..Q......K..KCD.CGK.F...S.L..H.. | |
| Retrocopy | KSLHLSSKYVTHQTVPIEQKNSEQVKCVESINGNSHPSLQQKASAVKKSHKCDDCGKSFKYNSRLIQHKI |
| Parental | VHTGEKPYKCDECGKAFRLKSSLLRHQTIDTGQKPHKCDDCGKVFHAKSALLTHQTIHTGQKPYKCDECG |
| .HTGEK.Y.CD.CG..FR..SSL..H..I.TG.KP.KC..CGK.....S.L..H...H.G.K..KCDECG | |
| Retrocopy | MHTGEKRYECDDCGGTFRSSSSLRVHKRIHTGEKPYKCEECGKAYMSYSSLINHKSTHSGEKNCKCDECG |
| Parental | KAFCAKSVLARHQTIHTGEKPYKCDECGKAFRLKSILLSHQRVHTGEKPYKCGECGKAFADSSYFRRHQK |
| K.F...SVL..H..IHTGEKPY.C.ECGKAFR..S.L..H.R.HTGEKPY.C..CGK.F..SS..R.H.. | |
| Retrocopy | KSFNYSSVLDQHKRIHTGEKPYECGECGKAFRNSSGLRVHKRIHTGEKPYECDICGKTFSNSSGLRVHKR |
| Parental | IHTGEKPYECDECGKAFRVKSILLSHQTVHTGEKPYKCDECGKAFTDRSHLRRHQKIHTGQKLFKCDICD |
| IHTGEKPYECDECGKAF.....LL.H...H.G.KPYKCDEC.K.F...S.L..H..IHTG.K...CD.C. | |
| Retrocopy | IHTGEKPYECDECGKAFITCRTLLNHKSIHFGDKPYKCDECEKSFNYSSLLIQHKVIHTGEKPYECDECG |
| Parental | KVFRRSKQLAGHQSVHSGEKPYKCDECGKAFRVKSILLIHQTVHTGEKPYKCDECGKAFTDRSHLRRHQK |
| K.FR.S..L..H...H.GEKPYKCD.CGKAF...S.L..H...H.G.K...C.ECGK.F...S.L..H.. | |
| Retrocopy | KAFRNSSGLIVHKRIHTGEKPYKCDVCGKAFSYSSGLAVHKSIHPGKKAHECKECGKSFSYNSLLLQHRT |
| Parental | IHTGEKPYKCDECGKAFRVKSTLLRHQTVHTGEKPYKCDACGKVFRVKSFLLCHQTIHTGQKPYKCDECG |
| IHTGE.PY.CD.CGK.FR..S.L..H...HTGEKPYKCD.CGK.....S.L..H..IH.G.KPYKC..C. | |
| Retrocopy | IHTGERPYVCDVCGKTFRNNSGLKVHRRLHTGEKPYKCDVCGKAYISRSSLKNHKGIHLGEKPYKCSYCE |
| Parental | KAFRVNQPSQFLTHKRLHTGEKPYKCDECGKAFRRNLSNVSSHQTVHTGEKPYKCDECGKAFRVKSILLS |
| K.F..N..S....HKR.HT.EKP..CDECGKAFR.N.S....H...HTGE.PYKC.ECGKA....S.L.. | |
| Retrocopy | KSF--NYSSALEQHKRIHTREKPFGCDECGKAFRNN-SGLKVHKRIHTGERPYKCEECGKAYISLSSLIN |
| Parental | HQTVHTGEKPYKCDECGKTFTHSSNLRRHQKIHTGQKLFKCDICDKVFSRSEQLAGHQSVHSGEKPYKCD |
| H..VH.GEKPYKCDEC.K.F.....L..H.KIH.G.K..KCD.C.K.F.....L..H..VH..EKPY.CD | |
| Retrocopy | HKSVHPGEKPYKCDECEKAFITYRTLINHKKIHLGEKPYKCDVCEKSFNYTSLLSQHRRVHTREKPYECD |
| Parental | ECGKAFRVKSILLRHQTVHTGEKPYKCDECGKAFTHSSNLRRHQKIHTGQKLFKCDICDKVFSRSEHLAG |
| .C.K.FR..S.L..H...HTGEKPYKCD.CGKA....S.L..H...H.G.....CD.C.K.F.....L.. | |
| Retrocopy | RCEKVFRNNSSLKVHKRIHTGEKPYKCDVCGKAYISHSSLINHKSTHPGKTPYTCDECGKAFFSNRTLIS |
| Parental | HQSVHSGAKPYKCDECDKAFRVKSILLIHQTVHTGEKPYKCEECGKAFTHSSNLRRHQKIHTGQKLFKCD |
| H..VH.G.KP.KC.EC.K.F...S.L..H...HTGEKPY.C..CGKAF..SS.L..H..IHTG.K...CD | |
| Retrocopy | HKRVHLGEKPFKCVECGKSFSYSSLLSQHKRIHTGEKPYVCDGCGKAFRNSSGLTVHKRIHTGEKPYGCD |
| Parental | ICDKVFNRSEQLAGHQSVHSGEKPYKCDECGKAFRVKSILLRHQTVHTGEKPYKCDECGKAFRVKSTLLR |
| .C.K.......L..H.SVHSG..PY.C.ECGK.F...S.L..H...HTG.K.Y.C.ECGKAF...S.L.. | |
| Retrocopy | ECGKAYISHSSLINHKSVHSGQQPYNC-ECGKSFNYRSVLDQHKRIHTGKKLYQCNECGKAFNIRSNLTK |
| Parental | HQTVHTG |
| H...HTG | |
| Retrocopy | HKRIHTG |
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 | 7 .28 RPM | 6 .27 RPM |
| ERP005899_muscle | 3 .80 RPM | 17 .10 RPM |
| SRP017611_brain | 10 .60 RPM | 8 .22 RPM |
| SRP017611_kidney | 8 .18 RPM | 10 .73 RPM |
| SRP017611_liver | 2 .27 RPM | 4 .61 RPM |
| SRP030211_testis | 6 .76 RPM | 6 .32 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_41 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_41 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_41 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 | ENSBTAG00000040411 | 1 retrocopy |
retro_btau_41 ,
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