- Transcript BART1_0-u18118.006
- Transcript IDBART1_0-u18118.006
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30560371 | 30559963 | + |
| chr3H | 2 | 30560762 | 30560701 | + |
| chr3H | 3 | 30560965 | 30560882 | + |
| chr3H | 4 | 30561375 | 30561078 | + |
| chr3H | 5 | 30561823 | 30561684 | + |
| chr3H | 6 | 30562313 | 30562226 | + |
| chr3H | 7 | 30562615 | 30562424 | + |
| chr3H | 8 | 30562874 | 30562713 | + |
| chr3H | 9 | 30563162 | 30562969 | + |
| chr3H | 10 | 30563897 | 30563747 | + |
| chr3H | 11 | 30564584 | 30564019 | + |
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 | 1.68042 | 8.67238 | 5.72534 |
| morex | ETI | 12.3404 | 12.7878 | 22.9642 |
| morex | LEA | 15.8142 | 0.0000315517 | 5.41521 |
| morex | EPI | 4.96465 | 0.00060581 | 5.88879 |
| morex | ROO | 0.789834 | 1.10862 | 0 |
| morex | ROO2 | 0.705995 | 0.458282 | 0.5745 |
| morex | NOD | 3.28555 | 1.27341 | 1.59465 |
| morex | RAC | 0.652947 | 1.70682 | 3.20434 |
| morex | INF1 | 8.099 | 4.80314 | 8.64557 |
| morex | INF2 | 11.0827 | 9.03643 | 4.58724 |
| morex | CAR5 | 6.6247 | 6.80833 | 4.49245 |
| morex | CAR15 | 0.149058 | 0 | 0 |
| morex | LEM | 9.9622 | 8.67048 | 9.60975 |
| morex | LOD | 0.785545 | 1.03019 | 0 |
| morex | PAL | 4.5158 | 3.42532 | 5.01273 |
| morex | SEN | 27.6489 | 23.9758 | 9.81306 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g41910.1 | +2 | 0.0 | 563 | 277/317 (87%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.1 @ TAIR |
+2 | 0.0 | 550 | 268/355 (75%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851980 FORWARD LENGTH=663 |
| BRACH PP3 | Bradi4g12180.1.p | +2 | 0.0 | 689 | 353/381 (93%) | pacid=32786407 transcript=Bradi4g12180.1 locus=Bradi4g12180 ID=Bradi4g12180.1.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-u18118.006 2346 150831_barley_pseudomolecules TTATCCCCTTCCGTCCCCCGCTGCCCCAGGCCTCGCGCTCTACGGCGCGCCATGGCCATG CCTTCCACTCCTTCCTCCTCGCGGCCGCCCATGCTGCACCCCGCCTCCAAAACTCCGAAC CCGCCCCGCCTGCTGCCGCTCGTCACCAGAGGCGCTGCTGCCCCTCGCCCTCCTCTGCTC ATCTCCTTCGCTCCGCCCGCGCCTGGTCGTCGCGGGCTCCGCGCCGCTGCCGCCCAACAA CCCGCCTACGAAGATGGGGAGGAGGAAGAAGATGGGGAGGAGGATGGGGAGTGTTACAGC GAGGAGGAGGAGGAGGATGAGGAGGAGTTGGACGTGGAGGCGATGGAGGAAGAGGCGCGG CGCGCCGCCGCCGACCTCGCCGCGCGCCTCGACCGCGAGCTCCGCGTCGATGGTGATGTT CGGGAGAAAAGAAGAACCATGAGGGACAAGACATCAACAACATCTAAACATATCCCAGAC AGTAAGCTTCCAAAGGTGGCTATTATTGGTAGACCTAATGTGGGTAAATCTGCGCTGTTC AATCGGCTTGTCGGGGGTAACAGGGCTATCGTTGTTGATGAACCTGGTGTAACAAGGGAT CGTTTGTATGGACGATCTTATTGGGGTGATCAAGAGTTTATGGTTATTGATACTGGGGGT GTCATTACTCTATCGAAGTCTCAAGCAGGTGTAATGGAAGAACTTGCCATCACAACTACT GTTGGTATGGATGGGATTCCAATGGCCTCTCGAGAAGCTGCTATTGCTAGGATGCCATCA ATGATTGAGAAGCAAGCTGTTGCCGCCGTTGAAGAAGCAGCTGTCCTTCTTTTCCTTGTG GATGGTCAGGCAGGCTGGTCTTGTGGCAGCTGATATAGAAATTGCTGATTGGTTACGTCG CAACTTCTCACACAAGTGCATCATACTTGCTGTAAACAAATGTGAATCGCCACGGAAAGG GCAAATGCAAGCATTAGAATTTTGGTCATTAGGGTTTTCACCTTTACCAATATCTGCTAT TACCGGCACTGGAACTGGAGAGCTCCTGGATATGGTCTCTTCGGAACTGAAAAAGTTCGA GGGACTAGAAGGATTGGATGATGTTGAAGAAGACGAAAACCGCGTTCCTGCTATTTCTAT TGTTGGAAGACCAAATGTTGGAAAAAGTAGCATTCTAAATGCTTTGGTGGGAGAAGATAG AACTATTGTGAGCCCAGTTAGTGGTACCACCCGTGATGCCATTGATACTGAGTTAACCAC AGAGGATGGGCAGAAATACAAACTCATCGATACGGCTGGCATCCGACGGAGAGCAGCAGT TGCTTCTGCTGGCAGCACAACTGAAACACTTTCAGTAAAGCGTGCATTTAGTGCAATTCG TCGATCTGATGTAGTTGCCCTTGTTATTGAAGCGATGGCCTGCGTCTCTGAGCAGGATTA TAAAATTGCAGAAAGGATTGAGAAAGAGGGAAAGGCATGTGTCATTGTTGTGAACAAATG GGATACAATCCCAAACAAGAACAATGAGAGTACTACACATTATGAACAGGATGTAAGAGA GAAGCTTCGTGTACTTGACTGGGCACCTATTGTTTACTGTTCTGCGATAAATGGGAACAG CGTTGAAAAGATTATTTCTGCTGCTTCTTTGGTTGAAAAGGAAAGGTCTAGAAGACTCGG CACCTCTATTCTTAACCAAGTGATTAGAGAAGCTGTAGCATTCAAAGCACCACCCCGAAC AAGAGGTGGCAAAAGAGGCCGCGTTTATTACACAACACAGGCTGCTGTTCGTCCACCAAC GTTTGTTCTCTTCGTCAATGACGCAAAACTCTTCCCTGAGCCGTATCGGCGGTACATGCA CAAGCAGCTCCGGTCTGACGCTGGATTCCCGGGCACGCCTATTCGTCTACTGTGGCGTAG CAGGAAGCGGACTGATAGGCAACAGAGGAGATCAAATACGGAGGCTCGTGGTGCACTTGT AGCGGCGAGTTAGCATGCGAAGCAATGTTGCTACCTTCAAAAACACAAGGAAAATGTGGC GAGCTAGGAGTACCACGGTATCCCTTTTCCTCCTTGTTCACGCGCGTTTCCTGGCTGCGA ACGTGTGACTATCAATGTGCCAAGAAGTTAAGGTTCATATTCCTCAACTACTGCCAAAGT TGAAGTGCGGTCACTGTACTCTAATAGTATAATTTTATGGCCTCTCAACTGCTAGAATGT ATGGAATTTTATGGCCCCTCTCTCTCTCTCAGATGAACATCAACTTTTCTGTTTTCATGC GATGTTGCATGCATGTATGATTATTGATGGTTTCTTTTGTCTTCAATCTCATTTTGATGA TGTGCT
Protein Sequence (383 aa)
>BART1_0-u18118.006 383 150831_barley_pseudomolecules MVRQAGLVAADIEIADWLRRNFSHKCIILAVNKCESPRKGQMQALEFWSLGFSPLPISAI TGTGTGELLDMVSSELKKFEGLEGLDDVEEDENRVPAISIVGRPNVGKSSILNALVGEDR TIVSPVSGTTRDAIDTELTTEDGQKYKLIDTAGIRRRAAVASAGSTTETLSVKRAFSAIR RSDVVALVIEAMACVSEQDYKIAERIEKEGKACVIVVNKWDTIPNKNNESTTHYEQDVRE KLRVLDWAPIVYCSAINGNSVEKIISAASLVEKERSRRLGTSILNQVIREAVAFKAPPRT RGGKRGRVYYTTQAAVRPPTFVLFVNDAKLFPEPYRRYMHKQLRSDAGFPGTPIRLLWRS RKRTDRQQRRSNTEARGALVAAS