RetrogeneDB ID: | retro_btau_455 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 12:506961..507720(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TALDO1 | ||
| Ensembl ID: | ENSBTAG00000010336 | ||
| Aliases: | None | ||
| Description: | transaldolase [Source:RefSeq peptide;Acc:NP_001030360] |
Retrocopy-Parental alignment summary:
>retro_btau_455
GTGAAGCTGCAGAGGATGGATAGTGTGCTGGACCAGCTCAAACAGTTGATTGCAGTGGAGGCTGACACAGGCAATTTCCA
CCCTATTGACTAGTACGAGCCCCAGAATGCCAACACCAATGCATCATTGATCCTGGCCATGGCACAGATACCCATCTATC
AGGAGCCGGTGGAGGACGTCATAGCCTATGCAGGAGTCTCGGTGGGTAACAAGAGGAACAAATTATAAATGCTCTTGATA
AACTTTGTTTGCTATTTGGAGCAGAAATATTGAAGAAAATTCCAGGATGGGAATTCATGGAAGTGGATGCAAGGCTCTCT
TTCAATAAGAATGCCATGTTGGCCCAGCCCAGCACCCCATCAAGATATACAAAGAAGCCAGGATCATCAAGGACTGGATT
CTTATAAAACTGTCATCCACCTGAAAAAGAATTCAGTCTGGAAAGAAGCTAGAAGAGGAGCATGGCATGCACTACAGTAT
AACCCTACTCTTATCCTTTGCTCATGTGATGGGCTATGCAGAAACAGGTGAACTCATGTCCCCATTCCTGGGTTGTATTC
TCAACCAGCATGTGGCCAACACATACAAGAAGTTGTAGGAACCTCTGGAGGACTCACTAGTAAAGAGTGTCAACAAGATC
TGCAACTATTACAAGAAACTCCACTGTAAGATGATCATCATGGGTGCCTCCTTTCACAGCACTGCTATGTCAGGGCCTTG
GAAGCCTGGTGCTGTTTTCTCACCACCTCACCCCAGGTC
ORF - retro_btau_455 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.4 % |
| Parental protein coverage: | 75.37 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | VKRQRMENALDQLKQFTTVVADTGDFHAIDEYKPQDATTNPSLILAAAQMPTYQELVEEAIAYG-RKLGG |
| VK.QRM...LDQLKQ...V.ADTG.FH.ID.Y.PQ.A.TN.SLILA.AQ.P.YQE.VE..IAY..R.LGG | |
| Retrocopy | VKLQRMDSVLDQLKQLIAVEADTGNFHPID*YEPQNANTNASLILAMAQIPIYQEPVEDVIAYA<RSLGG |
| Parental | SQEEQITNAIDKLFVLFGAEILKKIPGRVSTEVDARLSFDKDAMVAR-ARRLIELYKEAGISKERILIKL |
| .QEEQI.NA.DKL..LFGAEILKKIPG....EVDARLSF.K.AM.A..A...I..YKEA.I.K..ILIKL | |
| Retrocopy | *QEEQIINALDKLCLLFGAEILKKIPGWEFMEVDARLSFNKNAMLAQ<AQHPIKIYKEARIIKDWILIKL |
| Parental | SSTWEGIQAGKELEEHHGIRCNMTLLFSFAQAVACAEAGVTLISPFVGRILDWHVANTDKKSYEPQEDPG |
| SST...IQ.GK.LEE.HG.....TLL.SFA.....AE.G..L.SPF.G.IL..HVANT.KK..EP.ED.. | |
| Retrocopy | SST*KRIQSGKKLEEEHGMHYSITLLLSFAHVMGYAETG-ELMSPFLGCILNQHVANTYKKL*EPLEDSL |
| Parental | VKSVTKIYNYYKKFGYKTIVMGASFRNTG-EIKAL-AGCDFLTISPQL |
| VKSV.KI.NYYKK...K.I.MGASF..T.....AL.A.C.FLT.SPQ. | |
| Retrocopy | VKSVNKICNYYKKLHCKMIIMGASFHSTA<YVRALEAWCCFLTTSPQV |
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 | 16 .44 RPM |
| ERP005899_muscle | 0 .00 RPM | 161 .11 RPM |
| SRP017611_brain | 0 .00 RPM | 38 .46 RPM |
| SRP017611_kidney | 0 .00 RPM | 66 .09 RPM |
| SRP017611_liver | 0 .00 RPM | 58 .59 RPM |
| SRP030211_testis | 0 .01 RPM | 47 .26 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_455 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_455 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_455 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 5 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000010336 | 1 retrocopy |
retro_btau_455 ,
|
| Macropus eugenii | ENSMEUG00000000841 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000025503 | 2 retrocopies | |
| Rattus norvegicus | ENSRNOG00000018367 | 1 retrocopy | |
| Xenopus tropicalis | ENSXETG00000001671 | 1 retrocopy |