- Transcript BART1_0-u41201.005
- Transcript IDBART1_0-u41201.005
- Gene IDBART1_0-u41201
Barley RTD
Exon Structure of BART1_0-u41201.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 659416282 | 659416063 | + |
| chr5H | 2 | 659417266 | 659416951 | + |
| chr5H | 3 | 659417758 | 659417637 | + |
| chr5H | 4 | 659419657 | 659418101 | + |
| chr5H | 5 | 659420969 | 659420632 | + |
| chr5H | 6 | 659422509 | 659421570 | + |
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
Salmon TPM Values: sixteensamplesmorex
These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials
| Sample | Treatment | Rep 1 | Rep 2 | Rep 3 |
|---|---|---|---|---|
| morex | EMB | 0.567143 | 2.36725 | 0.731637 |
| morex | ETI | 2.41238 | 1.45041 | 1.0784 |
| morex | LEA | 0.608791 | 0.890888 | 2.29482 |
| morex | EPI | 1.98854 | 2.32705 | 3.8968 |
| morex | ROO | 1.12609 | 0.887792 | 0 |
| morex | ROO2 | 1.54832 | 1.905 | 2.97008 |
| morex | NOD | 0.863047 | 1.0572 | 2.48798 |
| morex | RAC | 1.59221 | 1.87356 | 1.14369 |
| morex | INF1 | 0.798763 | 3.62549 | 3.62105 |
| morex | INF2 | 5.69238 | 3.55526 | 3.43048 |
| morex | CAR5 | 1.10596 | 1.94151 | 1.60032 |
| morex | CAR15 | 1.3645 | 1.02583 | 1.71383 |
| morex | LEM | 0.694508 | 1.00339 | 0.433703 |
| morex | LOD | 1.36159 | 1.22536 | 0.544816 |
| morex | PAL | 0.773381 | 0.793438 | 1.81585 |
| morex | SEN | 1.74722 | 1.06608 | 0.791009 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g63300.1 | +1 | 4e-116 | 369 | 191/218 (88%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G11860 @ ARAPORT AT5G11860.4 @ TAIR |
+1 | 7e-81 | 267 | 149/192 (78%) | Symbols: | SCP1-like small phosphatase 5 | chr5:3822024-3823395 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi4g02010.1.p | +1 | 3e-125 | 391 | 203/223 (91%) | pacid=32785818 transcript=Bradi4g02010.1 locus=Bradi4g02010 ID=Bradi4g02010.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
Click here to see more tracks within GBrowse -->
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (3493 bp)
>BART1_0-u41201.005 3493 150831_barley_pseudomolecules CACCCCACCCCCGCTCCGCCGTCGCCCCCCACCCTCGCCGTCGCCGCCCCGCCTACCGCA TCCCGCATACAATCTCCGACGCCGTCCCCGACCGCGTCCTCCCTCTGCCGCCGGCCACTA CCACGGAGCCCCCGCGCCAGCAGATCGACGCCGCCGGGCCCGTCCACCCCGTCTCGCCGC CCGCCAGCTCGTCCCCGGCCTCCAGCTCGCCTCCGCCCAGGTCTGTACTCTGAGGGTTAT TTGCGTTGAAAGCTCTACGTGCCACTTTGACGGAGTTTGTGCAATTACCCTGAACTGACT TGGCGGAAGTGTGCTGTGTGGTCTGGTGTTCCTTTTCTCATATACGAGCCAACTGCAGGC AAGAAGTCTTCTTGATTGAAGGATGCCGACAAGAAAAAAAGGACCTGCAAGAAATGCAAC TGTCGAGCATGTTAATACGAAAACTAGCAGGCAACCTAGAAGACCCACTCAGACCGCAGC TGCTGATAAGAAAGTCAATGATCTAATTACTTCTTCTTCCAAAAAGCAGAAACCTGCCGG AGACCCTCTGAAGAAAAACCAAGTTCTAAGCGGTGGAAGAAAATTAACATCTCTATATGA TTCTGAAACTGAAAATGAAGTGGCTGATGTGCCAAGTAGTAGTATGCTTGATCACAAGTC TCACGGAGATGATGAAGAGCCATGTGAGAACATATTTTCTCAACCATTCCACCATCATAA TGAAGACGACAGTGATGGCTTGAGCAAAGGTACACAATTAGAACACTGAAACTCCCTCTA AACGATGCTGTTTGAATATCTCGCCATCTTAAGATGTATCAATGTGATGCATTAATGCAT AAGTCTGTATTCCCTCTGTTTCTTTTTACTCCACACATTGGGTTTTTCTTAAGTCAAAGT GTAAAGTTTGACAACATTTATATAAATTGTCAACATCTACAATACCAAATAATAAATATA GGACCCTGATAAGTGCCACACGTGTGGCACGAACACATGACAACTCCGAACTTTTTTGAT GGCAAGTTTAGTGGCCCGAGGATCGCAACTTTAGTTGTTATAAGCATGGCAACTTCCTTT TTGGATGGCAAGTTTCAGTTTTTTTTTTGGTTTGTTTTTACTTTTTGGATGGTAACTTTA GTTATAAAAaacgtcagggttggaatgcttcgTGCCACACGTGTGGCACTTATCATTTGG GTAAATATAATATAAAATAGATTCCATCATGGATTTAATAATATTGATTTGGTATATTGA ATGTTTGTATTTTTTCTATAATATTGGTCGAACTTCGGAAAGTTTGACATAAGACAAACC TAATATGCGAAGTAGAAAGAAACAGAGGGAGTATCTAGTAATCTGGTTGGTATGGCTTCT TATTTTCCTCGTTATCTTCAGTATCTAGAAGGCATATATGCTTATATCACCACATCCACA TCCACATCCTTCCCCTAATTTATATGTACTTAGACCTGTCCCACTAGTCAATGTAACCTC ACCTTTGTAGAATATTCAGTTTTTATATTAATATTATCAAGCTCTTTTTTAAAGCAGACA TGTGATTTCTGACAATCCTTTATAAGTGGTAAGTGAAAGTTTTGAAGTCCTTAGTCACTG TATCTGCTTTGCCTTTCCCTGACTAATCTAGACTGCGTGGTGCAATGCTATTTTTCTCTC TTATTTCATTTGTTGTATATTCAGAACATGCAAATTAGTATTTTTATCTACAGCTTGTAC TGTGAAAAGTGGATCTGTGAGTGTAAGTATGCCAACACCTTGTAATTCATGTACATTAGC AATTTTCAGATCTATGTTTGAATTTTCACATCCATTCATATAGTGAATAATAAGTACTCC TTTGTAAGATGGCTTGACACTCTTATTGCAGTTCCTGTGCAATCAACATGTGGAAATACG AAGCGTGCAAACGATGAATACAGTGAATTGGGTAGTCTTTCTCCCGAAGTGTCTGCTATA TATCTTGCAATGCAGCACTCCAAACTGGAGTGTATTGATGAACAAAGTCAAGATTCGATC TCAACAGATGAGTGCGCTGATCCTGATGAGGCTGAGGAGCTTGATGAGTTTGACCCTTAT AGCTTTATAAAGGATTTGCCTGAGTTATCTATGGTTGTACCCAAGTTTCGACCCGTTCTT CTTCCAAAGCAAACTCGGAGCTGCCCTAGAACCACCCTTGTTCTTGATCTGGATGAGACA CTGGTGCATTCTACTCTTGAGCCCTGTGAAGATTCTGATTTCACTTTCCCAGTTCGTTTT AATCTCAGAGATCACACAATCTATGTACGGTGTCGTCCATATCTGAAAGACTTCCTGGAG AGAGTAGCCAGCATGTTTGAGATAATCATCTTCACGGCTAGTCAAAGTATCTATGCAGAA CAACTGCTTAATGTTCTTGATCCGAAAAGAAGGTTGTTCCGTCATCGAGTTTATCGCGAG TCTTGCGTCTACGTGGAGGGCAACTACTTAAAGGATCTATCAGTTCTCGGACGTGACTTG TCTCGTGTTGTCATAGTTGACAATTCTCCACAGTCCTCCTCTCCCCACATGGATTCATCA AGATAGTCATCGATCATGCCTTAGAATTGATTTGCTGAGCAGCGCGCTTGTTGTACCATG GGTGTAGTTAATTCCTTCTTGCTGTGCAATGAGATTGTCACAAATTATTATTTATTTACA AAAAAAATGTGTGTAGCAATGAGTACTACAATTACATTTGCATCACATGTAAGCAGATGA ATCAAGATTTATTCTCTGATATTGTTGCTTTCAGGCCTTTGGGTTCCAGTTGGACAATGG CATACCGATCGAGAGTTGGTTCGACGACCCAAACGACAAGGAGCTCCTAGCACTGCTACC GTTCCTGGAAAGCCTGGTTGGTGTGGAAGATGTCCGGCCATTCATCGCAACTAAGTTCAA CCTCCGCCAGAAGGTGGCCAGCGCGACTTCCCTTGCGATGCACTTCTTTCCTAATGGGGA GTGTGCCAGCTGAAGGGCTCCCGGAGAAAACAGGCAATCAAGTGCTCGAAAGGATACCTG AAAATTTAGAATCCTTTGTTGTTCTGGTACAATCATGTGTCATTTAATTTCGAACCGCCA GACGGACAGAGTCATAATTTGGGCTGTTGTAAGTTTCTAAAAACCGGTAAACCTTAGGGA ACCTTGTACAAGCAGTAGCCAGGACCCAGAGGGGTCACTGCCCAGCATTGTAATAGACCA GCGGATATTTGTCGGAATTTGCTGCCCAGCATTGTAATAGGCCAGCAGATATTTGTCGGA ATTTACTGCTAAGCACTGTAATAGCCCAGCGGATATTTGCCAGAATTTGTTGCGTTCAAC GCAGTTATGTCGCAGTCTGTAGTTGTCAAGTCTAGTAAAGAAGTGGGCCAGTGAGGGATT ATGCCCATTTGAGCCACTATATCCCCATTTGTGATCTAGCTTTCGTTTGTGTTTGAACCG TGCAATTTAAAAC
Protein Sequence (198 aa)
>BART1_0-u41201.005 198 150831_barley_pseudomolecules MQHSKLECIDEQSQDSISTDECADPDEAEELDEFDPYSFIKDLPELSMVVPKFRPVLLPK QTRSCPRTTLVLDLDETLVHSTLEPCEDSDFTFPVRFNLRDHTIYVRCRPYLKDFLERVA SMFEIIIFTASQSIYAEQLLNVLDPKRRLFRHRVYRESCVYVEGNYLKDLSVLGRDLSRV VIVDNSPQSSSPHMDSSR