- Transcript BART1_0-u37955.003
- Transcript IDBART1_0-u37955.003
- Gene IDBART1_0-u37955
Barley RTD
Exon Structure of BART1_0-u37955.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 564070540 | 564069393 | - |
| chr5H | 2 | 564070767 | 564070626 | - |
| chr5H | 3 | 564071885 | 564071456 | - |
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 | 1.09672 | 1.54508 | 1.45915 |
| morex | ETI | 1.3491 | 1.12186 | 1.43128 |
| morex | LEA | 1.23626 | 1.21499 | 1.7112 |
| morex | EPI | 2.04727 | 2.36748 | 2.22294 |
| morex | ROO | 2.29634 | 0.551614 | 0.979843 |
| morex | ROO2 | 1.06849 | 0.778284 | 1.1394 |
| morex | NOD | 0.604513 | 1.5533 | 2.02732 |
| morex | RAC | 3.18006 | 2.11384 | 3.01526 |
| morex | INF1 | 3.42357 | 3.41822 | 3.81184 |
| morex | INF2 | 3.28739 | 3.68883 | 4.00301 |
| morex | CAR5 | 1.89963 | 2.5238 | 1.81423 |
| morex | CAR15 | 0.186856 | 0.716451 | 0.214345 |
| morex | LEM | 1.39781 | 1.39972 | 1.12468 |
| morex | LOD | 2.05752 | 1.21396 | 1.76184 |
| morex | PAL | 1.25183 | 0.99178 | 1.25818 |
| morex | SEN | 1.20117 | 2.18922 | 1.60045 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g36140.1 | +3 | 3e-36 | 139 | 80/138 (58%) | protein|RNA recognition motif 2 domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi4g36020.1.p | +3 | 7e-56 | 190 | 103/154 (67%) | pacid=32789987 transcript=Bradi4g36020.1 locus=Bradi4g36020 ID=Bradi4g36020.1.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 (1720 bp)
>BART1_0-u37955.003 1720 150831_barley_pseudomolecules GCGAACGTGCCCTCGCCGCCAGTGCCGCCGCGTTGCGGCATCACGGAGATCGACGAGTTC CGGGAGGTGGAGTCGGAGGATAACCTCTCCCCTTGTTCCGTCCTCACGCCCTGGAGGAGG CCGACGCCCGCCTCGGCGCTGCCTTCGCCTCCGCCCCTCGTGGTCGGGGGGAAACGGGCC TTCGACCCCACCAGCGAGAAGACTTCTCTGATGATCTGCAATATCCCCAACGGATTCGTG TTAGCGGGCTGCTATTCTCTGCTGCCAGTGCCAGCCATTTCCCCCTCTTCTTTTTGCTGA AATACTCTGTGGATTCTTGCTATGTGCGCAGGAAGCGGAGGTTCATGGCGATTCTGGACC AGCATTGCGTCCATGAGAACGACAATCCTGAATGGCGTGTCGTTGGGGGTGGCAAGTTCG TGAGATCGGAGACGAAGTACAACAAGGGCTATGCGTTCGTCAACATGACGACGGCGACTG CAGCGCGGCGGCTCCATGCTTTTCTCCACGGGCACCGCTGGGCGCTGGCGGGCTCTCGGA AGGTATGCGAGGTTGTGCACGCGGACATCCAGGGGGTGGATGCTTTGTCAGCGCACTTCT CCAGCTCCAAGTTCCCATGCGGTAACAAGGACTTCCTGCCAGTGCGCTTCGGCCCGCCGC GGGACGGCCTTCGGCCGACGGTGGAGCGTGTAATTGGCCGCACGGTGGTCCACCGTCCCG CTGATCAATCTGCTCACCCCACGCCGCGTGCTGCACGTATGTTTCCTTGAAGTTATAATC TCAACTTTTTTCTGAACTTTGTGTGACTGGTAAGCAGTCGTGGCCTGACTTATAATGAGG TTTAGGGCCAGTTCTTTTAGGGTTTATGGGTGGCTGCCAAAATAAGCTGCCACCTATCCA GCTTATTCTTGCAGCCCAACTAAATTTTATTCTAGAAGCCTACTACTATGATATTGTATT ATGCTAGTGAAATGTACTCTTAGTTTCTTCTTATTAAAAATTGTTTGTTTGCTCATGGAG GTTGCACATATCTGGACCTCATGCGTTGATCATTTCAAAGGAAATACAAGGAAGTTAGTA TTGGTCTGTGTTTCTGCAGTGCTTTGGGCATTGTGGAGTTATAATTCTTGCTTCCAGATC ATTAGATTGATGGATCCTTTTTCTACGATTAAGCTAACTGGCTCTTGGATACATTTTTGG CCTCTCTTGCAGAAAGAGGAGGCAAATGGAAACCTGGTGCAGTGGGGAACAAAACTGTTT GAGCTGGTGGCTACTGGCTAGTGATGTCTTTGCTTCGTCGCGAGGATGGAGGCCTACTCA CCTTAGGGTAGGTGCTTAGTGTGCTTGGTTACCCAAGATGATCAAGTTAGATGGTTCTTT TGGGGCTGCAGGAGTATCTTCTAGTGTCTGTATGACTGTATCCTACCTTGGAGATGTTGG CTTCATTTGTCTTCCCTAGGTAGCAGCAATGCTTGGTGGTTCTGCCATCCGATTTCCTTT GAGTTGTCACTAACTGTACTCATCTGCCCTGAACTTTCTTAGATTGGTTTGTGCATCTGT TCGCATGTTAACCGTATGTTATCCGCCCGTGTATGTTTTTGAAGATTTGGCATCCAGTTG CGATGTGTGATGTTGATGGCGCTGAAAGAAAAGGTTAATGGTGGGGAGAGTTTTTTTGGC TCCCCGAGCACCAATGTGCTGTTTTTCTGCCCGAAGTCTC
Protein Sequence (141 aa)
>BART1_0-u37955.003 141 150831_barley_pseudomolecules MAILDQHCVHENDNPEWRVVGGGKFVRSETKYNKGYAFVNMTTATAARRLHAFLHGHRWA LAGSRKVCEVVHADIQGVDALSAHFSSSKFPCGNKDFLPVRFGPPRDGLRPTVERVIGRT VVHRPADQSAHPTPRAARMFP