- Transcript BART1_0-u18118.017
- Transcript IDBART1_0-u18118.017
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.017
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30560965 | 30560662 | + |
| chr3H | 2 | 30561823 | 30561078 | + |
| chr3H | 3 | 30562313 | 30562170 | + |
| chr3H | 4 | 30562615 | 30562424 | + |
| chr3H | 5 | 30562874 | 30562713 | + |
| chr3H | 6 | 30563162 | 30562969 | + |
| chr3H | 7 | 30563897 | 30563747 | + |
| chr3H | 8 | 30564604 | 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 | 0.76526 | 0 | 0 |
| morex | ETI | 0.00000000120529 | 0.0000745057 | 0.511731 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 1.61587 | 2.84364 | 2.32747 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.216377 | 0 |
| morex | NOD | 0 | 0.372663 | 0.674903 |
| morex | RAC | 0 | 0.000116702 | 0 |
| morex | INF1 | 3.91168 | 2.34679 | 3.62194 |
| morex | INF2 | 3.89552 | 0 | 0.542961 |
| morex | CAR5 | 0.567998 | 0 | 1.30434 |
| morex | CAR15 | 0.243405 | 0.747329 | 0 |
| morex | LEM | 0.0000251643 | 0 | 0 |
| morex | LOD | 0 | 0.010948 | 0.276629 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 1.80262 | 1.32058 | 0.567334 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g41910.1 | +1 | 0.0 | 543 | 268/307 (87%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.1 @ TAIR |
+1 | 7e-156 | 470 | 230/307 (75%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851980 FORWARD LENGTH=663 |
| BRACH PP3 | Bradi4g12180.1.p | +1 | 0.0 | 586 | 306/333 (92%) | 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 (2479 bp)
>BART1_0-u18118.017 2479 150831_barley_pseudomolecules CTTCACTTGGTTCAAATACTATATGTCGACATTTTTCAGATGGTGATGTTCGGGAGAAAA GAAGAACCATGAGGGACAAGACATCAACAACATCTAAACATGTCGGTGTATCTTCATGTT CTAATAATGAGTCGTCTAGTTAACATGCTAATGAAGACACTGTTGGATGTGGATTGTGGA AAACAAAGTTAACCAATTTACTGTTCAATCCATGACTCAGATCCCAGACAGTAAGCTTCC AAAGGTGGCTATTATTGGTAGACCTAATGTGGGTAAATCTGCGCTGTTCAATCGGCTTGT CGGGGGTAACAGGGCTATCGTTGTTGATGAACCTGGTGTAACAAGGGATCGTTTGTATGG ACGATCTTATTGGGGTGATCAAGAGTTTATGGTTATTGATACTGGGGGTGTCATTACTCT ATCGAAGTCTCAAGCAGGTGTAATGGAAGAACTTGCCATCACAACTACTGTTGGTATGGA TGGGATTCCAATGGCCTCTCGAGAAGCTGCTATTGCTAGGATGCCATCAATGATTGAGAA GCAAGCTGTTGCCGCCGTTGAAGAAGCAGCTGTCCTTCTTTTCCTTGTGGATGGTCAGGC AGGTTTAGGCGATTATAGTTGTATCATATATTTTGAGCAACTATTTTATCTATTACTTTT GTTATTAAATCTTCTAATCGTACTAGCGCGGTTTATTCTAATATGAACGGCTCAATATTT ACCTCCTAACGACTCAAGTCTTGTTTCCCTGATGCCTCTTCTTGGTTCATACTCCTGAGA AAATTCTTCTTGACATAAAAATGCATAACATGCCAGTGATAATATGCTATCATTTTTAGT TACCTGTACATTGTTACTATAAACTTCCAAAGCTTGTTTTCACTAACATGATAGTCTCAA ATTCCTCCAGGCTGGTCTTGTGGCAGCTGATATAGAAATTGCTGATTGGTTACGTCGCAA CTTCTCACACAAGTGCATCATACTTGCTGTAAACAAATGTGAATCGCCACGGAAAGGGCA AATGCAAGCATTAGAATTTTGGTCATTAGGTTGGCAGGGTTTATATTTATTTGCTGCTCG GCTCATCTTTCCTCTATTCCTGCTAGGTTTTCACCTTTACCAATATCTGCTATTACCGGC ACTGGAACTGGAGAGCTCCTGGATATGGTCTCTTCGGAACTGAAAAAGTTCGAGGGACTA GAAGGATTGGATGATGTTGAAGAAGACGAAAACCGCGTTCCTGCTATTTCTATTGTTGGA AGACCAAATGTTGGAAAAAGTAGCATTCTAAATGCTTTGGTGGGAGAAGATAGAACTATT GTGAGCCCAGTTAGTGGTACCACCCGTGATGCCATTGATACTGAGTTAACCACAGAGGAT GGGCAGAAATACAAACTCATCGATACGGCTGGCATCCGACGGAGAGCAGCAGTTGCTTCT GCTGGCAGCACAACTGAAACACTTTCAGTAAAGCGTGCATTTAGTGCAATTCGTCGATCT GATGTAGTTGCCCTTGTTATTGAAGCGATGGCCTGCGTCTCTGAGCAGGATTATAAAATT GCAGAAAGGATTGAGAAAGAGGGAAAGGCATGTGTCATTGTTGTGAACAAATGGGATACA ATCCCAAACAAGAACAATGAGAGTACTACACATTATGAACAGGATGTAAGAGAGAAGCTT CGTGTACTTGACTGGGCACCTATTGTTTACTGTTCTGCGATAAATGGGAACAGCGTTGAA AAGATTATTTCTGCTGCTTCTTTGGTTGAAAAGGAAAGGTCTAGAAGACTCGGCACCTCT ATTCTTAACCAAGTGATTAGAGAAGCTGTAGCATTCAAAGCACCACCCCGAACAAGAGGT GGCAAAAGAGGCCGCGTTTATTACACAACACAGGCTGCTGTTCGTCCACCAACGTTTGTT CTCTTCGTCAATGACGCAAAACTCTTCCCTGAGCCGTATCGGCGGTACATGCACAAGCAG CTCCGGTCTGACGCTGGATTCCCGGGCACGCCTATTCGTCTACTGTGGCGTAGCAGGAAG CGGACTGATAGGCAACAGAGGAGATCAAATACGGAGGCTCGTGGTGCACTTGTAGCGGCG AGTTAGCATGCGAAGCAATGTTGCTACCTTCAAAAACACAAGGAAAATGTGGCGAGCTAG GAGTACCACGGTATCCCTTTTCCTCCTTGTTCACGCGCGTTTCCTGGCTGCGAACGTGTG ACTATCAATGTGCCAAGAAGTTAAGGTTCATATTCCTCAACTACTGCCAAAGTTGAAGTG CGGTCACTGTACTCTAATAGTATAATTTTATGGCCTCTCAACTGCTAGAATGTATGGAAT TTTATGGCCCCTCTCTCTCTCTCAGATGAACATCAACTTTTCTGTTTTCATGCGATGTTG CATGCATGTATGATTATTGATGGTTTCTTTTGTCTTCAATCTCATTTTGATGATGTGCTC ATTTGCAACACAGATAGGC
Protein Sequence (313 aa)
>BART1_0-u18118.017 313 150831_barley_pseudomolecules MVSSELKKFEGLEGLDDVEEDENRVPAISIVGRPNVGKSSILNALVGEDRTIVSPVSGTT RDAIDTELTTEDGQKYKLIDTAGIRRRAAVASAGSTTETLSVKRAFSAIRRSDVVALVIE AMACVSEQDYKIAERIEKEGKACVIVVNKWDTIPNKNNESTTHYEQDVREKLRVLDWAPI VYCSAINGNSVEKIISAASLVEKERSRRLGTSILNQVIREAVAFKAPPRTRGGKRGRVYY TTQAAVRPPTFVLFVNDAKLFPEPYRRYMHKQLRSDAGFPGTPIRLLWRSRKRTDRQQRR SNTEARGALVAAS