- Transcript BART1_0-u42531.008
- Transcript IDBART1_0-u42531.008
- Gene IDBART1_0-u42531
Barley RTD
Exon Structure of BART1_0-u42531.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 22237825 | 22237419 | + |
| chr6H | 2 | 22238974 | 22238014 | + |
| chr6H | 3 | 22239292 | 22239057 | + |
| chr6H | 4 | 22239749 | 22239402 | + |
| chr6H | 5 | 22240504 | 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 materials
| Sample | Treatment | Rep 1 | Rep 2 | Rep 3 |
|---|---|---|---|---|
| morex | EMB | 1.79287 | 4.3662 | 3.89823 |
| morex | ETI | 3.679 | 5.10701 | 2.67804 |
| morex | LEA | 1.73939 | 4.30039 | 3.6173 |
| morex | EPI | 2.47554 | 5.72568 | 4.37966 |
| morex | ROO | 2.60846 | 3.55068 | 0.724587 |
| morex | ROO2 | 1.58953 | 3.12382 | 2.87741 |
| morex | NOD | 4.04687 | 1.74011 | 2.91962 |
| morex | RAC | 4.22718 | 5.25335 | 4.3522 |
| morex | INF1 | 9.86907 | 7.81117 | 7.65368 |
| morex | INF2 | 6.33928 | 14.2652 | 12.3345 |
| morex | CAR5 | 11.9667 | 12.131 | 10.296 |
| morex | CAR15 | 3.11268 | 6.01045 | 3.80982 |
| morex | LEM | 3.07122 | 4.0272 | 2.40821 |
| morex | LOD | 5.1817 | 2.14137 | 3.39781 |
| morex | PAL | 2.76174 | 3.99358 | 2.44717 |
| morex | SEN | 4.95895 | 5.04679 | 4.72732 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g03040.3 | +1 | 5e-100 | 312 | 192/231 (83%) | protein|RNA recognition motif containing protein, expressed |
| TAIR PP10 | AT5G52040 @ ARAPORT AT5G52040.4 @ TAIR |
+1 | 1e-64 | 220 | 144/256 (56%) | Symbols: RS41, At-RS41 | RNA-binding (RRM/RBD/RNP motifs) family protein | chr5:21131881-21133318 FORWARD LENGTH=324 |
| BRACH PP3 | Bradi3g02226.1.p | +1 | 5e-110 | 339 | 213/248 (86%) | 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 (2625 bp)
>BART1_0-u42531.008 2625 150831_barley_pseudomolecules CAGTTGTGCTGGACACCAAGGTGTTTGAGCTATAGATACGCAGTTTGCATGCCGTTTGGG TAAATGAATCTAGCTAGCATATGTGAAGCTCCTCATAAGTACCTCAAATGTGCTGAGCTT TTGCAAATCTGCTACTGATGTTTATGTCTGTAGTTTCTGTGTAAAATGTCTGGAATAATG ACTGCATGAATCTGCTATCATCTATTGAGCATGTGTATCATAACCGCCCACGATTAACAG TTTCTCTGACTTGTATCTTCGAATAGGTTTGGGGAAGATCTGTTTATACAGCAACACCAA CATGAGGCCAATTTTCTGCGGGAACCTTGACTATGATGCCCGCCAATCTGAAGTCGAGCG TCTTTTTGGCAAATATGGAAGAGTGGAGCGAGTTGACATGAAGACAGCTCCATACAAGTC TTCCAAGGGAATGGAGTGAATGGTGTGCTCAGTTAGCTTTAACAAGATTGGGTGGGTGCC AAGTGGAAACAGCCGTCCTCGTTGCTGCAAAGACTGCCATCGCTTCTTCAACCATCCCTG GTGCAGTATGATGCGGTCTGTTATAAGATATGATTGGACAAAGTGTATCAGGCCAGAGAC TGTTCAGCAGAATCAGATTATGTTTATTGTTATTTTGTCAAAGTCATTGGACAAGTCCAA ACCAGGATATAAATTTAGAAAAAGAAGTTATTTCTTAAAGTTTAGGTCCAGTACTCAATT GTTTCTTTGCCGCAGGAATATCATGAAGCATCTGTGCTCTTCCTGGTTGATGGACTGGGC TCTACCTTTCCTGCCTGAGCCCCTGCCTCATGCCCTGTCCATTTCCAGGAGTTCACAGTC CACCATGACATCTGTCACTTGGAAACGACCACCTTGTGACTGATGTCTTACTTTTACATC AATGTTGCACCCTCCTCCCCCGCCCGGTTACACTCTCCCACGTCGACCAAACCATGCCAA TCTCATGGCCGGCTGGAGAAGAGTAGAGGTTCCACCGGCAGCACCACCACCTCTTTTGGT GTACCACGAACGTTTGGATTATCGTACTCTGACATCATTTAGTGCAACATGCAAAAGGTC TGTTCTTATTTGTGCTGACATATCAATTTGTAGCTTCCTGAGGTGATCTTGAAGTTTTTT TTCTCTTGCAAAGATTTTGATCGCCATACAAGCCATTATCTGTTTACCCTAAGGGTTAGT AAAATGTGCGAGCTACTTTAAATAACTAGTCATCTTTCCATGTTCAACATTGAAGGATTT GCGTTCGTCTACATGGAAGATGAACGTGATGCTGAAGATGCTATCCGTAGACTTGATAGA ACTGACTTTGGTAGAACAGGGAGGAGACTGAGAGTCGAATGGACAAAGGAGGATCGCAGT GGTGGTCGGAAAGGAAATGGAAAGAGATCTCCAAGCAGCGTGAAACCAACCAAAACCTTG TTTGTGATCAACTTTGATCCAATCAACACAAGGACAAGAGATCTGGAGAAGCACTTTGAT CTGTATGGCAAGATTGCAAATATCAGAATCAGAAGGAACTTTGCATTTGTCCAGTATGAA ACACAGGAGGATGCTACTAAAGCTCTGGACGGTACTAATGGAAGCACTGTGATGGACAGG GTGATTTCTGTTGAGTATGCGCTTCGTGACGATGATGAAAAAAGGAACGGGTACAGTCCA GACAGGAGAGGAGGCCGTGATAGGTCTCCTGACAGAAGGGACAATCGTGGTAGGTCGGCA AGTCCTTATGGCAGAGGGCGGGAAAGGGGCAGCCCAGACTATGGCAGGGGCAGGGAGAGG GGCAGCCCGGACTATGGCAAGGGCGGTGCCAGAGATAGTCCTGACTATGTCCGTGGTGGA AGCCCGTACGGCGGCAAAGGGGATGACAGGGCTAGCCCCAAGTATGACCGTGAACGCCGT GAAGCCAGTCCTGCCTATGACAGGCGCCGCAGCCGCTCGCCTGCAAGGGAAGATAGGGAC TGAAGCTGTACCATGGATGGCTGCGCTCAATCCTGGGTGCTTCGGACCAAATGGATGCAC CGTCCTAGTGCGATGTTCGCTCAAGTTGGTTATGTTAGGCAGCCAGGAACTTCTGTAATA TCTCTCTATTAGCTAGCTCTAGCTGAATGCTTTGTCGATTTAGTTTGAACTGTGATTGTT AGCTTGAACTTTGTGCAAAGGGATTCTTCCGGTGAGACCATTTGCGGAGCGATGAGATGT ACCGTGTATCGACCGACAGCAGTATTCTAGCTTTGCACTTTGGTTATTCTTCCATATGTT CCTATTCTTCACTATTGTTTCTGCTTGTGTGCTGGTCGACATGGTTGAGGATGGTGACCT TTGAGGAAGATAGAGGCTAATGTTGTGGTGGTGACGTCCATGGCTTCGGCAACATACTTC TTCTGTACCTAAATAACTATAGTTCTTTTGTACCTAAATAGTTATAGTTGGGGAGAACTA GGTACTTCTGAAGTAGGAGAGAGGAGGGGTGGATGATGTGGTGGGAGCTTGGTTTTTATT TATTTATTTTTTGTCAAAGAAATGATAGAAAAAATATATTTGATTTAGTTATGTTGATTG ATTTTGGTAAATGACAAGTTATGATTTGATATTTTTGGCCCTATG
Protein Sequence (247 aa)
>BART1_0-u42531.008 247 150831_barley_pseudomolecules MFNIEGFAFVYMEDERDAEDAIRRLDRTDFGRTGRRLRVEWTKEDRSGGRKGNGKRSPSS VKPTKTLFVINFDPINTRTRDLEKHFDLYGKIANIRIRRNFAFVQYETQEDATKALDGTN GSTVMDRVISVEYALRDDDEKRNGYSPDRRGGRDRSPDRRDNRGRSASPYGRGRERGSPD YGRGRERGSPDYGKGGARDSPDYVRGGSPYGGKGDDRASPKYDRERREASPAYDRRRSRS PAREDRD