RetrogeneDB ID: | retro_btau_627 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 16:51291687..51292853(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SEPT6 | ||
| Ensembl ID: | ENSBTAG00000004291 | ||
| Aliases: | SEPT6, SEPT11 | ||
| Description: | Septin-6 [Source:UniProtKB/Swiss-Prot;Acc:Q3SZN0] |
Retrocopy-Parental alignment summary:
>retro_btau_627
GTCAGCCAGGGCTTCTGCTTCAACATCCTGTGGGTGGGAGAGACAGGTTTGGGCAAGTCCACCCTCATGGACACCCTGTT
CAACACCAAGGTCGGGGGGAGCCAACCACACACACACGGCCGGGTGTCCAGCTCCGGTCCAATACCTGTGACCTTCAAGA
GAGCAACATGGGGCTAAAGCTGACAATTGTTAACACAGTGGGCTTCGGGGACCAGATCAACAAGGAGGACAGCTACGAGT
CCGTCGTGGAATTCATCGGTGCCCAGTTTGAGGCCTACCTGTAGGAGGAGCTGCGGATCTGCAGGGTACTGAACACCTAC
CATGACTCTCGCATCCGTGCCCGCTTGTACTTCATCGCCCCCATGGGTCATTCCTTGAAGTCTCTGGACCGAGTGACTAT
GAAGAAGCTGGACAGTAAGGGGAACATCATCCCCATCATCATCAAATCAGATGCCATTTCTAAGAGTGAGCTAACCAAGT
TCAAAATCAAAATCACCAGCAAGCTTGTCAGCAGTGGAATCCAGATCTACCAGTTCCCTACAGATGACAAGTCAGCAGCA
GAGATCAACAGAACCGTGAACGCCCACCTGCCATTTGCTGTCAAGGGCAGCACAAAAGAACGGAAGATAGGTAAGAAGAT
GAAAGTGTGGTGGTATCCCTGGGGCACGGTGCAAGTTGAAAATGAAGCCCACTGTGACTTTATGAAGCTGCAGGATATGC
CGATCTGAGGCAACATGGAGGATCTCCAGGAGCAGACCCCTGGCCCACACTGTGAGCTGTACCGCCGCTGTAAGCTGGAG
GAGGTGGGCTTCAAGGACACCGACCCTGACAGCAAACCATTCAGTTTACAGGAGACGTATGAGGCCAAAAGGAATGAGTT
GCTAGAGGAGCTCCAAAAAAAAGAAGAGATGAGAAAGATTTTCGTCCAGAGAGTCAAAGAGAAAGAAGCTGAACTTAAAG
AGGCAGAGACAGAGCTGCATTAGAAGCTTGACCGTCTGAAGAAACTACACCAGGGTGAGAAGAAGAAGCTGGAGGATAAG
AAGAAATCCCTGGATGACAAAGTGGACGCTTTCAAACAGAGGAAAATGGCAGCTGAGCTGCTCCAGTTTCAGGGCTCCCA
GGTTGAAGGCTCACAGACTCTGAAAAGAGACAAAGAGAAGAAAAAC
ORF - retro_btau_627 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.4 % |
| Parental protein coverage: | 91.57 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | VSQGFCFNILCVGETGLGKSTLMDTLFNTKF-EGEPATHTQPGVQLRSNTYDLQESNVGLKLTIVSTVGF |
| VSQGFCFNIL.VGETGLGKSTLMDTLFNTK...GEP.THT.PGVQLRSNT.DLQESN.GLKLTIV.TVGF | |
| Retrocopy | VSQGFCFNILWVGETGLGKSTLMDTLFNTKV<RGEPTTHTRPGVQLRSNTCDLQESNMGLKLTIVNTVGF |
| Parental | GDQINKEDSYKPIVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHACLYFIAPTGHSLKSLDLVTMKKLDS |
| GDQINKEDSY...VEFI.AQFEAYL.EEL.I.RVL.TYHDSRI.A.LYFIAP.GHSLKSLD.VTMKKLDS | |
| Retrocopy | GDQINKEDSYESVVEFIGAQFEAYL*EELRICRVLNTYHDSRIRARLYFIAPMGHSLKSLDRVTMKKLDS |
| Parental | KVNIIPIIAKSDAISKSELTKFKIKITSELVNNGVQIYQFPTDDESVAEINGTMNAHLPFAVIGSTEELK |
| K.NIIPII.KSDAISKSELTKFKIKITS.LV..G.QIYQFPTDD.S.AEIN.T.NAHLPFAV.GST.E.K | |
| Retrocopy | KGNIIPIIIKSDAISKSELTKFKIKITSKLVSSGIQIYQFPTDDKSAAEINRTVNAHLPFAVKGSTKERK |
| Parental | IGNKMMKARQYPWGTVQVENEAHCDFVKLREMLIRVNMEDLREQTHSRHYELYRRCKLEEMGFKDTDPDS |
| IG.K.MK...YPWGTVQVENEAHCDF.KL..M.I..NMEDL.EQT...H.ELYRRCKLEE.GFKDTDPDS | |
| Retrocopy | IGKK-MKVWWYPWGTVQVENEAHCDFMKLQDMPI*GNMEDLQEQTPGPHCELYRRCKLEEVGFKDTDPDS |
| Parental | KPFSLQETYEAKRNEFLGELQKKEEEMRQMFVQRVKEKEAELKEAEKELHEKFDRLKKLHQDEKKKLEDK |
| KPFSLQETYEAKRNE.L.EL....EEMR..FVQRVKEKEAELKEAE.ELH.K.DRLKKLHQ.EKKKLEDK | |
| Retrocopy | KPFSLQETYEAKRNELLEEL-XXXEEMRKIFVQRVKEKEAELKEAETELH*KLDRLKKLHQGEKKKLEDK |
| Parental | KKSLDDEVNAFKQRKTAAELLQSQGSQAGGSQTLKRDKEKKN |
| KKSLDD.V.AFKQRK.AAELLQ.QGSQ..GSQTLKRDKEKKN | |
| Retrocopy | KKSLDDKVDAFKQRKMAAELLQFQGSQVEGSQTLKRDKEKKN |
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 | 1 .59 RPM |
| ERP005899_muscle | 0 .00 RPM | 19 .69 RPM |
| SRP017611_brain | 0 .05 RPM | 27 .86 RPM |
| SRP017611_kidney | 0 .00 RPM | 16 .95 RPM |
| SRP017611_liver | 0 .00 RPM | 1 .13 RPM |
| SRP030211_testis | 0 .86 RPM | 0 .87 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_627 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_627 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_627 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000002608 | 1 retrocopy | |
| Bos taurus | ENSBTAG00000004291 | 1 retrocopy |
retro_btau_627 ,
|
| Macropus eugenii | ENSMEUG00000006112 | 1 retrocopy | |
| Microcebus murinus | ENSMICG00000002769 | 1 retrocopy |