- Transcript BART1_0-u42835.004
- Transcript IDBART1_0-u42835.004
- Gene IDBART1_0-u42835
Barley RTD
Exon Structure of BART1_0-u42835.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 34891732 | 34891700 | + |
| chr6H | 2 | 34892153 | 34891926 | + |
| chr6H | 3 | 34892472 | 34892398 | + |
| chr6H | 4 | 34893434 | 34893231 | + |
| chr6H | 5 | 34894042 | 34893848 | + |
| chr6H | 6 | 34894525 | 34894361 | + |
| chr6H | 7 | 34895187 | 34894927 | + |
| chr6H | 8 | 34896103 | 34895891 | + |
| chr6H | 9 | 34896414 | 34896192 | + |
| chr6H | 10 | 34897503 | 34896755 | + |
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 | 0.00133455 | 0.0000700914 | 9.17738 |
| morex | ETI | 6.26109 | 7.09539 | 12.1583 |
| morex | LEA | 0.000130569 | 0.378186 | 2.36563 |
| morex | EPI | 0.141541 | 2.18915 | 0.00000021902 |
| morex | ROO | 4.43284 | 2.89686 | 0.0000718432 |
| morex | ROO2 | 4.93651 | 4.05988 | 1.14906 |
| morex | NOD | 5.8193 | 6.97419 | 6.46417 |
| morex | RAC | 0.000000402063 | 0.733112 | 3.37627 |
| morex | INF1 | 7.12661 | 14.9784 | 12.4658 |
| morex | INF2 | 9.03501 | 13.8953 | 15.0294 |
| morex | CAR5 | 11.9636 | 9.10315 | 10.3402 |
| morex | CAR15 | 0.00000637243 | 3.42085 | 0.82783 |
| morex | LEM | 4.56305 | 1.95995 | 4.46599 |
| morex | LOD | 3.91045 | 6.93918 | 8.82669 |
| morex | PAL | 2.78867 | 3.92729 | 0.00000000386623 |
| morex | SEN | 1.93182 | 5.30581 | 4.76472 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g03690.1 | +1 | 0.0 | 852 | 394/453 (87%) | protein|beta-amylase, putative, expressed |
| TAIR PP10 | AT5G45300 @ ARAPORT AT5G45300.1 @ TAIR |
+1 | 0.0 | 622 | 304/523 (58%) | Symbols: BMY2, BAM8 | beta-amylase 2 | chr5:18353636-18356696 FORWARD LENGTH=689 |
| BRACH PP3 | Bradi3g02800.1.p | +1 | 0.0 | 996 | 483/532 (91%) | pacid=32818286 transcript=Bradi3g02800.1 locus=Bradi3g02800 ID=Bradi3g02800.1.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 (2346 bp)
>BART1_0-u42835.004 2346 150831_barley_pseudomolecules NNNNNGCCCCCTCTCCCTCCCCCGGCCCAATTCCAGGGTGCTTTCCAGGCCACTTCTCTG GAAACCCCAGTTTTTACCAACTCTCTGAACAGCTATGCCGTTGGGACGCCATTAGATTCC CAGGCTTCAGCCCTACAAACAGATGATAGCCTGTCACCGTCGTCATTGGACTCAGTCGTG GTGGCAGAGCAATGCATAAAGAATGAGAGCTTTGGGAATTCAAGTTCAGCCAATTCTTTG AACTGTATGGGTAGTGATCAGCTATTGAGAGCATCAGCAGTATGGGCGGGTGATTACACG AAAACTCCATATATACCATTGTACGCCTCTTTGTCTATGGGCATTATCAATTGTTATTGC CAACTGGTTGATCCTGAGGCTGTACGTGCTGAACTAAGGCATCTGAAATCTTTGAATGTT GATGGAGTTATTGTTGACTGTTGGTGGGGGATTGTAGAAGCCTGGACTCCTCAAAAGTAT GAATGGTCTGGCTACAGGGACCTTTTTGGTATCATTAAAGAGTTCAAGCTAAAAGTTCAG GTTGTGTTATCATTTCATGGGTCTGGGGAGTGTGGATCTGGTCCTGTGTTAATTGCTCTT CCTAGGTGGGTAATGGAAATTGCACAAGAGAACCAAGATATATTTTTTACCGATCGAGAA GGTAGGAGGAATACAGAATGCCTCTCCTGGGGAATTGACAAAGAGCGTGTCCTTCGAGGG AGAACTGGCATCGAGGTTTATTTTGATTTCATGAGGAGCTTTCATATGGAATTCAGAACC CTATCTGAAGAGGGTCTTATTTCTGCTATTGAGATTGGATTGGGTGCTTCTGGAGAGCTA AGATACCCTTCGTGTTCAGAAAAAATGGGCTGGAGATATCCTGGTATTGGTGAGTTTCAG TGTTATGACAGGTATATGCAAAAGAACCTACGGCAATCAGCCTTGACACGGGGGCATTTG TTTTGGGCCCGTGGGCCTGATAATGCTGGCTACTATAATTCAAGGTCACACGAGACTGGC TTTTTTTGTGACGGAGGTGATTATGACAGCTACTATGGGCGGTTCTTCCTTAATTGGTAT TCTGGAATCCTTATAGATCATGTGGATCAGGTGCTCTCACTTGCTACTCTTGCATTTGAT GGAGCAGCAGTTGTGGTGAAGATCCCCTCCATCTATTGGTGGTACAGAACTGCAAGCCAT GCTGCAGAGCTTACTGCAGGATTCTACAACCCTACAAATCGAGATGGATACTCTCCAGTT TTCAGAATGCTCAAGAAGCATTCCATAATTCTTAAAGTGGTTTGTTATGGCCCAGAATTT ACAGTTCAGGAGAATGATGAAGCACTTGCTGATCCAGAAGGTTTAACCTGGCAGGTTATG AACGCAGCATGGGATCATGGTCTATCTGTAAGTGTAGAGAGTGCTCTTCCATGTCTTGAC GTGGACATGTACTCTCGGATCCTTGACACAGCAAAGCCGAGGAATGATCCTGACCGACAC CATCTCTCATTCTTTGCATACCGTCAGCGAACTCCATTCCTTTTGCAGAGAGATGTGTGC TTCTCAGAGCTTGAGACCTTCGTAAAGTGTATGCACGGGGAGGCTATCCAGAACTTTGTA GATTGAACTTGCTTTGGCGACGCATTCCCTGTTATGTTGCAGCTCGCGTTCTGCAAATTT CCGGATTCCCTGCGTAGCTATCACAAGCTTTAACTCATATTGCTGATTGCTGCGTTCCGG CCATCCCCGCCTTTGCTATGGGTCAGCTAACCAGATGGCACTGAAACTGTTGTGCTGGTG GTGGGCAAGGATTAGCATCCCTTATCTGTGGTACAGGGCTGATAGTTCAGCAAGTTTTTA CCGTGGTGTGACCTAGCTTGGGCTAGAAAGATGGAAAGAATGGCGATGTATATATCTAAT AGTACTACACTATCATGCTCTAAGATGCAAAGAAAGCGTCTGAATTCTCCATGGTAAGCT GCTCGATGACAAGTGCTTGCAGTGGGTTTCCGAGGGATTCCTTGAACTCGCTTTTCCCTT TCTATTTTCCTTTGAACCTTATTGGGACATTTGTATTTCCGTTATGAAAGTAATGGAAAG GGGTTATGCCCAGCTCAAAAAAAAATAAAATCTCCATGATGCCGAAACATCTTTCTAGAC TACGACTGAAATTTGGACTGTCTGAGCTGAGGTTAGGTCTGAAATGGTTGTTAGTACTCT GGGAGCTTGTATATAGTATTTTGTTGATCCTAACTTTCCATACCAACAAAATCCAATGAG CACCCACTGCAAGCTGAGACCTCTTATTTGATGCTATATGTGCTGGCCATGGCATGGGCC TTTGAA
Protein Sequence (541 aa)
>BART1_0-u42835.004 541 150831_barley_pseudomolecules XXPPLPPPAQFQGAFQATSLETPVFTNSLNSYAVGTPLDSQASALQTDDSLSPSSLDSVV VAEQCIKNESFGNSSSANSLNCMGSDQLLRASAVWAGDYTKTPYIPLYASLSMGIINCYC QLVDPEAVRAELRHLKSLNVDGVIVDCWWGIVEAWTPQKYEWSGYRDLFGIIKEFKLKVQ VVLSFHGSGECGSGPVLIALPRWVMEIAQENQDIFFTDREGRRNTECLSWGIDKERVLRG RTGIEVYFDFMRSFHMEFRTLSEEGLISAIEIGLGASGELRYPSCSEKMGWRYPGIGEFQ CYDRYMQKNLRQSALTRGHLFWARGPDNAGYYNSRSHETGFFCDGGDYDSYYGRFFLNWY SGILIDHVDQVLSLATLAFDGAAVVVKIPSIYWWYRTASHAAELTAGFYNPTNRDGYSPV FRMLKKHSIILKVVCYGPEFTVQENDEALADPEGLTWQVMNAAWDHGLSVSVESALPCLD VDMYSRILDTAKPRNDPDRHHLSFFAYRQRTPFLLQRDVCFSELETFVKCMHGEAIQNFV D