RetrogeneDB ID: | retro_btau_1042 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 24:23121226..23121969(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BT.31951 | ||
| Ensembl ID: | ENSBTAG00000047635 | ||
| Aliases: | None | ||
| Description: | protein maestro [Source:RefSeq peptide;Acc:NP_001029724] |
Retrocopy-Parental alignment summary:
>retro_btau_1042
ATGGACCAAACAAGGAGAAGAATAAGGGGCCAGCCCCTTTCCAGCCCCGCCACCCAGCTCAAGAAGAAAAGGACATCAAT
GATCTCTTTCTTTTCCAAGGTCTCTTGGAATCTGAGGCTCCAGAAGCAGGAACCTCTGAAGAACGTGTTTTTCATCTTGG
CAGAGACAGCCTGGGACCCCAGTGTTAAAGAGTGTTATATGGCGATGAGAGGCCTGGGAATCATGACCTGTGAGACCCCA
GACAAGGCAAGAAAGTATAAGAAGATTGTTCTAGACCTGCTGGTGCATGGTCTGTATGACCTGGTGAGTTCTGAAGTAAT
CCACCAGAGCATGAAGATCCTGACACCATCATCCTAGGCAAGATGCAGAGGAAAGGCCTGAGCTTCTCCTCCTTAGACAT
CACCCTCCAGACCAGGGCTTTGCTTGATGACGAGAATGACAGCCTGAGATAATTGACCTTTGTCTTGTTTGGACAACTGG
TTACCCTTGCTGGACGGAAATGGAGGACGTTCTTCACCCATCAGGTGAATCTGACTTGGGAATCCCTCCTGTCCCACTTA
CAGGACAGGAATCCCCCGGTGGCCAAGGCTTGCAAAACAACCTTTTGAGCCTGTTCTCCATATCTGAGATAAACCAAGGA
CTACAGCTTCCAGAATGAGGACGGTCAAAGGAACCCTAAACTCTGCCTGCAGCTGAGCCCCTACCATCCAGAGCTCCTGC
AGTTCTATGCAAATAAAATCCTG
ORF - retro_btau_1042 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.2 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MDQTPRRMLGQPLSSPATQPKKRSTSVMSFFSKVSWNLRLQKQEPLKNVFFILAETARDPSVKKRHMVMR |
| MDQT.RR..GQPLSSPATQ.KK..TS..SFFSKVSWNLRLQKQEPLKNVFFILAETA.DPSVK...M.MR | |
| Retrocopy | MDQTRRRIRGQPLSSPATQLKKKRTSMISFFSKVSWNLRLQKQEPLKNVFFILAETAWDPSVKECYMAMR |
| Parental | GLGTMACETPDKVRKYKKIILDLLVHGLYDPVSSEVIHESMKTLTIIL-GKMQGKA-LGSFFIDITLQTR |
| GLG.M.CETPDK.RKYKKI.LDLLVHGLYD.VSSEVIH.SMK.LT........GKA.L.....DITLQTR | |
| Retrocopy | GLGIMTCETPDKARKYKKIVLDLLVHGLYDLVSSEVIHQSMKILTPSS*ARCRGKA<LSFSSLDITLQTR |
| Parental | TLLDDENDSLRYSAFVLFGQLADLAGRKWKSFFTRQVKQTQDSLLTHLQDRNPQVAKACKTTFRACSPYL |
| .LLDDENDSLR...FVLFGQL..LAGRKW..FFT.QV..T..SLL.HLQDRNP.VAKACKTTF.ACSPYL | |
| Retrocopy | ALLDDENDSLR*LTFVLFGQLVTLAGRKWRTFFTHQVNLTWESLLSHLQDRNPPVAKACKTTF*ACSPYL |
| Parental | RQSKDYSFQNEEDQRNPKLCRQLSHYHPELLQFFYANKIL |
| R..KDYSFQNE..QRNPKLC.QLS.YHPELLQ.FYANKIL | |
| Retrocopy | R*TKDYSFQNEDGQRNPKLCLQLSPYHPELLQ-FYANKIL |
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 | 0 .00 RPM |
| SRP017611_brain | 0 .00 RPM | 19 .23 RPM |
| SRP017611_kidney | 0 .00 RPM | 1 .19 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .38 RPM |
| SRP030211_testis | 0 .06 RPM | 59 .85 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1042 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1042 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1042 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000047635 | 1 retrocopy |
retro_btau_1042 ,
|
| Myotis lucifugus | ENSMLUG00000014572 | 1 retrocopy |