- Transcript BART1_0-u19873.012
- Transcript IDBART1_0-u19873.012
- Gene IDBART1_0-u19873
Barley RTD
Exon Structure of BART1_0-u19873.012
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 216303945 | 216303601 | + |
| chr3H | 2 | 216304733 | 216304559 | + |
| chr3H | 3 | 216306264 | 216306038 | + |
| chr3H | 4 | 216306861 | 216306447 | + |
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 | 3.46674 | 2.83273 | 5.46858 |
| morex | ETI | 8.50115 | 4.04302 | 3.68717 |
| morex | LEA | 1.29552 | 1.25154 | 1.54507 |
| morex | EPI | 1.94148 | 0.0237533 | 0.00399226 |
| morex | ROO | 5.26059 | 1.90055 | 0.000000223377 |
| morex | ROO2 | 4.19686 | 3.98669 | 3.37003 |
| morex | NOD | 3.054 | 3.7407 | 4.27195 |
| morex | RAC | 9.85861 | 5.00925 | 4.84841 |
| morex | INF1 | 3.80283 | 5.59204 | 12.3155 |
| morex | INF2 | 5.96778 | 1.49537 | 5.74868 |
| morex | CAR5 | 2.96049 | 1.55628 | 7.02076 |
| morex | CAR15 | 1.6985 | 4.10266 | 4.53987 |
| morex | LEM | 8.27527 | 8.00972 | 7.45079 |
| morex | LOD | 8.99575 | 10.2465 | 10.301 |
| morex | PAL | 6.47609 | 7.88921 | 3.34636 |
| morex | SEN | 3.9001 | 2.93487 | 3.92673 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g16210.1 | +1 | 4e-75 | 230 | 111/123 (90%) | protein|uncharacterized Cys-rich domain containing protein, putative, expressed |
| TAIR PP10 | AT2G40935 @ ARAPORT AT2G40935.1 @ TAIR |
+1 | 3e-71 | 221 | 102/166 (61%) | Symbols: | PLAC8 family protein | chr2:17083199-17084216 FORWARD LENGTH=190 |
| BRACH PP3 | Bradi2g09980.1.p | +1 | 4e-113 | 328 | 165/183 (90%) | pacid=32778952 transcript=Bradi2g09980.1 locus=Bradi2g09980 ID=Bradi2g09980.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
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grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (1162 bp)
>BART1_0-u19873.012 1162 150831_barley_pseudomolecules CTCGACCTCGCCCTCCCGTCCATTCCTAACACGCACCGGATATCTCCTCCTGCCGAAGCG CATGTACGACGCCGGCAATACAGCCACCGGCTCCCCTCCCCTTCCCTCTTATCTGCCGCC CGAATATCCGACGGGTGGCATCCGACGCGATTTTCTTTTGTTGGCTTTTGCCCAAATCTC ACCTCGTTCCTGGATCGGGTTTCTGCTTTCTTTCTTGATCAATTGAAATCTGGAATCCGC AGCTCGGGCATTCGGCGGACAGAGCGTTCCGGAACTGGTGAGGCGAGGCCGCGGATAAGC ACCAATTTGGTCGTCGGCGCTTCAGGGGTCTTTACCGATTTATTGATGGTTGGAAAAGGA AGCTATGTTCCGCCGCAGTATGTTCCGTTATATGGTGTAGATACTGAGGAGGATAGCGTT CCTGAGGTGGAGGAGAACATTGCCACGCGCCAAAGATTAAGCAGGGATCCTACACAATGG TCTTCAGGCATCTGTGCTTGTTTTGATGATCCACAGAGCTGTTGTATTGGTGCGACTTGC CCCTGCTTTCTTTTTGGAAAAAATGCACAGTTCTTGGGATCTGGAACTCTCGCTGGATCA TGCACCACCCATTGCATGCTTTGGGGCCTTCTGACAAGTTTCTGCTGTCTGTGTACTGGG GGGCTTGTATTAGCAGTTCCAGGGTCTGCTGTTGCTTGTTATGCTTGTGGATACCGCCAA GCACTAAGAACGAAGTACAACCTTCCGGAAGCACCATGCGGCGATTTGACGACGCACTTA TTTTGCCATCTGTGTGCGATATGCCAAGAGTACAGGGAGATCCGCGAGAGATCAGACAGT AGCGCCTCTTCAGCTCCTGATGTTACTCCACCTCCTGTGCAGACAATGGATGACCTTTGA CTGAGTAGATGACGAGAACATATCCTGCCTGGCAAATCTTTGGTTGGCTTGACATGCCCT TGCCTGTAAGTATTTGTGTTACTGTGCACTGCTCCCACAGCTACGATGTCAGATTTTATG CAGCTGGTGTAAAGATAACCTGTAAACTAATGGACAGCGCGAGAAAATGTAACCCTTTTG TTGCACGATTATAGCATGTAACATTTTTTCTTCATACATGTAGAAATGAAATGGAAACAA AGAGTGTTCTCCTGGACATGAG
Protein Sequence (299 aa)
>BART1_0-u19873.012 299 150831_barley_pseudomolecules LDLALPSIPNTHRISPPAEAHVRRRQYSHRLPSPSLLSAARISDGWHPTRFSFVGFCPNL TSFLDRVSAFFLDQLKSGIRSSGIRRTERSGTGEARPRISTNLVVGASGVFTDLLMVGKG SYVPPQYVPLYGVDTEEDSVPEVEENIATRQRLSRDPTQWSSGICACFDDPQSCCIGATC PCFLFGKNAQFLGSGTLAGSCTTHCMLWGLLTSFCCLCTGGLVLAVPGSAVACYACGYRQ ALRTKYNLPEAPCGDLTTHLFCHLCAICQEYREIRERSDSSASSAPDVTPPPVQTMDDL