- Transcript BART1_0-u14163.003
- Transcript IDBART1_0-u14163.003
- Gene IDBART1_0-u14163
Barley RTD
Exon Structure of BART1_0-u14163.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 677022138 | 677021974 | + |
| chr2H | 2 | 677024369 | 677022461 | + |
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 | 0.248835 | 1.14593 | 0.91625 |
| morex | ETI | 3.32961 | 3.59543 | 3.54013 |
| morex | LEA | 1.92539 | 0.819227 | 3.4984 |
| morex | EPI | 1.70774 | 0.919845 | 2.29486 |
| morex | ROO | 0.372746 | 0.154003 | 0.193195 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.428211 | 0.834789 | 1.96646 |
| morex | RAC | 0.341561 | 0.441926 | 0.246536 |
| morex | INF1 | 1.71461 | 2.76729 | 3.04107 |
| morex | INF2 | 2.7816 | 3.11455 | 3.56405 |
| morex | CAR5 | 0.735584 | 1.57365 | 0.736578 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.432819 | 0.124494 | 0.777946 |
| morex | LOD | 0.449185 | 0.19189 | 0.291284 |
| morex | PAL | 0.366032 | 0.428634 | 1.0818 |
| morex | SEN | 2.72035 | 1.06597 | 0.774303 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g47020.1 | +2 | 2e-167 | 485 | 271/352 (77%) | protein|genetic modifier, putative, expressed |
| TAIR PP10 | AT4G11570 @ ARAPORT AT4G11570.2 @ TAIR |
+2 | 3e-61 | 209 | 96/197 (49%) | Symbols: | Haloacid dehalogenase-like hydrolase (HAD) superfamily protein | chr4:7004743-7005864 FORWARD LENGTH=373 |
| BRACH PP3 | Bradi5g18060.7.p | +2 | 5e-179 | 516 | 278/340 (82%) | pacid=32810154 transcript=Bradi5g18060.7 locus=Bradi5g18060 ID=Bradi5g18060.7.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 (2074 bp)
>BART1_0-u14163.003 2074 150831_barley_pseudomolecules GCCGCATTATTGCCTATCCGGATGGGAGGCCATCCCCACCATCCAAGGGAAGAAGCGCCG GGCACCGAGCGAGCCGTGCGGGGGCGCCTCCTCTACTCCCTCCCCACTCCCGCCGATGCT CTTCAGCTCCACCTCCGACCTCCGCATCATCTTCTTCTTCCACGGTAAGACCGCGGTAGA AGCGCAGAAGGATCTCTTTTGGCAAAAGGCTCCGTGAAGTCCTCAAGCAGTCTTTTCCGG CCACATAGTAACTTTTAGTACATGTTTTGGTTCATATGCTGCCCAAAATTGGGGCTCTGT GTTTATTTTCTTATCTTATTACATTTCTTTAAATTCATAGCAGTTTGGATAATTTTGTCC TCACAGTGCAAGAATGGACCAGATTTACTAATGAAAGGCACGCACGGTAATCTAGTGAAC GAAATAATGGAACAACCCGCCTCACCCAGCCCCCCACACCACTCTTTTTTCTTCATTCCG AGGCTATACTGAAGTTCAGCCCAACTGAAGCTGAGCTCTTCATGTTGATGGATTTAACGC AGCACGTGTACATTTCTGCCCCGTTTAATATAGTTTTGCATCTTGTGCTTATACTACCAT TTACTTGCTTCTTAGCACAGGTGAAGTGTTCAGCTATGCTTCTCGTTGACCAGTCACACT TGAACTGAATCGACTTTGCTGCGAAGTGCTTGACAGTTTCAGTGAAAGTGTAGAGGACTT AGCAATGATCTCATCCATCAGCTTACTTGACAGTTCCCACCAGCTCATTCAGAAACTGTA CAGAAAATGCTGGCCAAGTAACTCAAATTCCAAACTGAACATGCATGCAACCGCGAAATC TGGGGGTAAGAGCATGAGGGTGAAGATGGCACTTCTGAAGCCCCATGCAACTGACTTCAA GAGGAATCATCAAGCCCACGAGGAAGACAATGTGTTTTACAAATTAGTTTATAGGCTCCC TGAAAGCCTTAGCTGTCTGTACACCAGTCAAAAACCAGTCAGAAAGAAGAAACAACAGAA GCAAGGAACTGTGTCCAGTAACCGGTTTGGTGTGATCTTGGAGTGGGAGGGAGTTGTTGT GGAAGATGATGACCCGGACCTGGAGCCCCGAGTGTGGTATGTATTATCACTTGAAGAGGC GAAGTCTTTCCCTCCGGATGAAACGCTGAAGAAAATCGAGGGAATGAGAACTGATCAGGC CATCTCAGAAGTCTTAAGTTGGTCGAAAGATCGACAAGAAATCGAAAGGTTAGCAGCACG TAAGGAGGTCATATATCAGAAACTCCGAGGTACTTTCTATCAGCTGCGGCCAGGTGTTCT CGACTTCTTGAACACCCTTGTGGATTCTGATATTCCAATAGCAGTAACAGCTTCTCGCCC CAGAATGAGCCTGGAAGAAAGCATAAAAGCCGTTGGTCTGCAAGGCTATTTCGATGTCAT AGTGGCGGCGGAGGACTTCCACCGAGGGAAACCCGAGGGTGAGATTTTTGAGGTTGCAGC AGACCAGCTTGGTCTTGAGCCTGATGTCTGTCTTGTGATGGGTAGCTCAAACTTGACGAC GCAGTCTGCACATACTGCTGGGATGAGGTGTGTGGCGGTTGCAAGCCGGCACCCTGCCTA TGAACTTCATGCAGCAAACCATGTTGTGAGATGGCTCGATCAACTCTCTGTTGTTGACCT GCAGAGGCTCGCCAATGGCGAGGTTCTTGGGCGCAGGGGCAGACAATCTGACATGGACAT GGAGATTGTGATCGAGGAGTGATGTTTCTGCAGGCACTTATCTACTACTAATATATAACT GTGTTGTAACTTCAGTACTGCATTACATTTTGTGACAGACCAAGTAGTGTAACACGTAAC AGATCAGCGTTCACTTCTTGTTTTCTTGTAATGCATAACTGAAACTCAGTTAGCTTAGAT GCTTTCAATCATCAGAAAGGAGTTGGAAGCGAAGAAACTTTCCACATTGCAAGTCTTTTG CTGTGCGGTACATATACTACCTCTTATATTTTGTTCCCCTGGCCATTTCAGAGATGAACG TTGGGGTTTTTTAGTGCTATATTGGTGAGTGACG
Protein Sequence (345 aa)
>BART1_0-u14163.003 345 150831_barley_pseudomolecules MISSISLLDSSHQLIQKLYRKCWPSNSNSKLNMHATAKSGGKSMRVKMALLKPHATDFKR NHQAHEEDNVFYKLVYRLPESLSCLYTSQKPVRKKKQQKQGTVSSNRFGVILEWEGVVVE DDDPDLEPRVWYVLSLEEAKSFPPDETLKKIEGMRTDQAISEVLSWSKDRQEIERLAARK EVIYQKLRGTFYQLRPGVLDFLNTLVDSDIPIAVTASRPRMSLEESIKAVGLQGYFDVIV AAEDFHRGKPEGEIFEVAADQLGLEPDVCLVMGSSNLTTQSAHTAGMRCVAVASRHPAYE LHAANHVVRWLDQLSVVDLQRLANGEVLGRRGRQSDMDMEIVIEE