- Transcript BART1_0-u42531.001
- Transcript IDBART1_0-u42531.001
- Gene IDBART1_0-u42531
Exon Structure of BART1_0-u42531.001
Chromosome | Exon | Start | Stop | Direction |
---|---|---|---|---|
chr6H | 1 | 22236688 | 22236557 | + |
chr6H | 2 | 22237825 | 22237685 | + |
chr6H | 3 | 22238974 | 22238862 | + |
chr6H | 4 | 22239292 | 22239057 | + |
chr6H | 5 | 22239749 | 22239402 | + |
chr6H | 6 | 22242157 | 22239832 | + |
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 materialsSample | Treatment | Rep 1 | Rep 2 | Rep 3 |
---|---|---|---|---|
morex | EMB | 3.12596 | 3.86917 | 3.23256 |
morex | ETI | 5.51477 | 3.52148 | 3.58251 |
morex | LEA | 3.89815 | 3.98177 | 4.34433 |
morex | EPI | 2.58279 | 2.00788 | 2.3203 |
morex | ROO | 0.719486 | 2.63153 | 1.35319 |
morex | ROO2 | 1.94159 | 1.09461 | 1.36918 |
morex | NOD | 1.84455 | 0.383615 | 0.199152 |
morex | RAC | 1.39622 | 0.700395 | 0.929925 |
morex | INF1 | 28.6399 | 14.8258 | 16.0877 |
morex | INF2 | 13.9844 | 10.2494 | 17.5365 |
morex | CAR5 | 7.3039 | 5.32851 | 5.27165 |
morex | CAR15 | 3.29341 | 2.46075 | 4.54853 |
morex | LEM | 2.79513 | 2.17241 | 0.765347 |
morex | LOD | 0.399432 | 0.376801 | 0.443988 |
morex | PAL | 0.589782 | 1.33707 | 1.31611 |
morex | SEN | 8.93878 | 7.24554 | 5.04043 |
Homology to Model Species (BLASTX to E-value < 1e-30)
Database | Hit | Frame | E-value | Score | % Identity | Description |
---|---|---|---|---|---|---|
Rice PP7 | LOC_Os02g03040.1 | +3 | 5e-120 | 371 | 220/261 (84%) | protein|RNA recognition motif containing protein, expressed |
TAIR PP10 | AT5G52040 @ ARAPORT AT5G52040.2 @ TAIR |
+3 | 1e-83 | 275 | 169/289 (58%) | Symbols: ATRSP41, RS41, At-RS41 | RNA-binding (RRM/RBD/RNP motifs) family protein | chr5:21131081-21133318 FORWARD LENGTH=357 |
BRACH PP3 | Bradi3g02226.1.p | +3 | 2e-133 | 406 | 241/258 (93%) | pacid=32814082 transcript=Bradi3g02226.1 locus=Bradi3g02226 ID=Bradi3g02226.1.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 (3296 bp)
>BART1_0-u42531.001 3296 150831_barley_pseudomolecules CCCCTGCTCACGGGCCACGGACCTGCCCCTGTCTGTCTCCGTCCTCCCCCCGCTCCACTC GCCGCCGGGTCCGAACCAGCCGCGCCCCCCGTCGAAAACCTAGGGTTCCGCCCTCCCCCG CCCCCTCCGAAGGTTTGGGGAAGATCTGTTTATACAGCAACACCAACATGAGGCCAATTT TCTGCGGGAACCTTGACTATGATGCCCGCCAATCTGAAGTCGAGCGTCTTTTTGGCAAAT ATGGAAGAGTGGAGCGAGTTGACATGAAGACAGGATTTGCGTTCGTCTACATGGAAGATG AACGTGATGCTGAAGATGCTATCCGTAGACTTGATAGAACTGACTTTGGTAGAACAGGGA GGAGACTGAGAGTCGAATGGACAAAGGAGGATCGCAGTGGTGGTCGGAAAGGAAATGGAA AGAGATCTCCAAGCAGCGTGAAACCAACCAAAACCTTGTTTGTGATCAACTTTGATCCAA TCAACACAAGGACAAGAGATCTGGAGAAGCACTTTGATCTGTATGGCAAGATTGCAAATA TCAGAATCAGAAGGAACTTTGCATTTGTCCAGTATGAAACACAGGAGGATGCTACTAAAG CTCTGGACGGTACTAATGGAAGCACTGTGATGGACAGGGTGATTTCTGTTGAGTATGCGC TTCGTGACGATGATGAAAAAAGGAACGGGTACAGTCCAGACAGGAGAGGAGGCCGTGATA GGTCTCCTGACAGAAGGGACAATCGTGGTAGGTCGGCAAGTCCTTATGGCAGAGGGCGGG AAAGGGGCAGCCCAGACTATGGCAGGGGCAGGGAGAGGGGCAGCCCGGACTATGGCAAGG GCGGTGCCAGAGATAGTCCTGACTATGTCCGTGGTGGAAGCCCGTACGGCGGCAAAGGGG ATGACAGGGCTAGCCCCAAGTATGACCGTGAACGCCGTGAAGCCAGTCCTGCCTATGACA GGCGCCGCAGCCGCTCGCCTGCAAGGGAAGATAGGGACTGAAGCTGTACCATGGATGGCT GCGCTCAATCCTGGGTGCTTCGGACCAAATGGATGCACCGTCCTAGTGCGATGTTCGCTC AAGTTGGTTATGTTAGGCAGCCAGGAACTTCTGTAATATCTCTCTATTAGCTAGCTCTAG CTGAATGCTTTGTCGATTTAGTTTGAACTGTGATTGTTAGCTTGAACTTTGTGCAAAGGG ATTCTTCCGGTGAGACCATTTGCGGAGCGATGAGATGTACCGTGTATCGACCGACAGCAG TATTCTAGCTTTGCACTTTGGTTATTCTTCCATATGTTCCTATTCTTCACTATTGTTTCT GCTTGTGTGCTGGTCGACATGGTTGAGGATGGTGACCTTTGAGGAAGATAGAGGCTAATG TTGTGGTGGTGACGTCCATGGCTTCGGCAACATACTTCTTCTGTACCTAAATAACTATAG TTCTTTTGTACCTAAATAGTTATAGTTGGGGAGAACTAGGTACTTCTGAAGTAGGAGAGA GGAGGGGTGGATGATGTGGTGGGAGCTTGGTTTTTATTTATTTATTTTTTGTCAAAGAAA TGATAGAAAAAATATATTTGATTTAGTTATGTTGATTGATTTTGGTAAATGACAAGTTAT GATTTGATATTTTTGGCCCTATGATTTGATTCCTTTAGGCGGGTTTTCAGAGTATTAACC CTGCGCGGCCCAGAAACCTCCCTAAGCCTCGACGACCCATTTGTTTCGTGTGTTTTGCAC AGTCCAATCCATTTCATCCCCCTTGGATCCCCTCCTATCCACACGTCTTTCAAGCCTCGA GGGCACACACACAGGGAACACAGGGAAAGAAGGAAAAAAGACAGGAAAAGCAACGCCCTC GCCGCCCCCGGGGTGTAAATGTTCTCCTCCGCCGGTTCTCCCCGAGATGATTCCTCCCCT CTCCTTCACTTCTCCATCCCCTCCCCTAACCCTAGGGCCGGCTCTTCTTGCTCCTCATCC GATACCCAATGGACATGGCTCTGTTGTGGAGTTTGTCTGTATGTCTCTTCTAATTGCAGA ACACGACATATAGGTTCGGTAGCCTTTAAATATTGGTTGAAATTTAGGTGGCTATTTAGT TGTTTTTTATCAACATGTAGTGGATTGTATGGATACTCATCTTGGTTTTTTTTCACCCAT ACACACTCCAGGATAGTACTGGGATCTTTGCTCGAGGTATAGTATTCTCTGAAAGCTTGT GAAACGAATCTTAGTTGCAATTTTGTGTAGCGAGGTAACTGCAAGGTTCAACCACTGCAC TTTTGTGTGAAAGCATGATTTTACGCAATACAGATTTTTTTTTCCATGATCAAAGAGGAT ACAGAGTGTTAGTGTAAAGCAAAACATATCTGCACTTTATTCAGTATTCAGGGAGAGCAC TGAAGAAGCACTTGCTATTTGTACCAAAAGTAATGCAAACCAATATTAGAAATGTGAATT CGCACATCTCTGGGAACACTGTGAACTGAATGTTCAGTTTAGTGTTAGTGCTTCGGTTCA GTGTACTGAATTTTCAGTGTTAGTGCTTCAGTTCAATGTACTAAATTTTCAGTGTTAGTG CTTCAGTTCAGTGTTCAAACCATTGTACTGGTGTTGCGTGTTAACTGAATTTTCAGCTGA GATATGTGTGCTCACTTGTATTCTTGACTTCATTGTTGGCAGAGGGTAGTTATATCTGAT ATCTAGCGTATATGTCTCTAGTTGAATTGGTTCTAGTTTAATTTATGGCAGCATTGGTTC TCCATTCTCACATTATATGTGTCATCTATTCTATTCTGCTAGTACTATCTTCCATACTCA AAAGCATTATCCCGTGTTGCATTATCTTTGTTGGACATTCAAAAGTTGGAAAACTGATCG TGAGCAATTGCACAAGTACTTTGTGTTGCTGGATACAAATATTTTGTGGCTGTGTAAAAT GTTGTTGTTGTGAAAGATCACACATGGCATGTTGATTCCGAGTAATGATGTTACAAGAAT TTATATTGTTGTTGCGATATACTCCATGCATGTGATGAGATACCGATTCAAATTCATGCA AATTTATGTTGTTGCTACAAAATTATTCCCCTGTAGCAGATCATATTTTTATTTGGACAC CTTTACAATTTTGTAGCAAGCTCTTCTTGATAAAAAGATTGCATTTTTGAACGCTTGCAC AATATTTGCATTCCCTGCCTACCAAACATTTGTTTCATATGAAGAGGATTGTGATTAGAG GGGTTTGAGGGGTTTCAAGTGGATTTGAGGGGATTGGGTGGAAGAGGGGAATTCAC
Protein Sequence (332 aa)
>BART1_0-u42531.001 332 150831_barley_pseudomolecules PAHGPRTCPCLSPSSPRSTRRRVRTSRAPRRKPRVPPSPAPSEGLGKICLYSNTNMRPIF CGNLDYDARQSEVERLFGKYGRVERVDMKTGFAFVYMEDERDAEDAIRRLDRTDFGRTGR RLRVEWTKEDRSGGRKGNGKRSPSSVKPTKTLFVINFDPINTRTRDLEKHFDLYGKIANI RIRRNFAFVQYETQEDATKALDGTNGSTVMDRVISVEYALRDDDEKRNGYSPDRRGGRDR SPDRRDNRGRSASPYGRGRERGSPDYGRGRERGSPDYGKGGARDSPDYVRGGSPYGGKGD DRASPKYDRERREASPAYDRRRSRSPAREDRD