- Transcript BART1_0-u18118.021
- Transcript IDBART1_0-u18118.021
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.021
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30561375 | 30561074 | + |
| chr3H | 2 | 30561823 | 30561684 | + |
| chr3H | 3 | 30562313 | 30562226 | + |
| chr3H | 4 | 30562615 | 30562415 | + |
| chr3H | 5 | 30562874 | 30562713 | + |
| chr3H | 6 | 30563162 | 30562969 | + |
| chr3H | 7 | 30563897 | 30563747 | + |
| chr3H | 8 | 30564609 | 30563994 | + |
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 | 0 | 0.00000288424 |
| morex | ETI | 4.06875 | 4.08226 | 6.58251 |
| morex | LEA | 0 | 0 | 4.16265 |
| morex | EPI | 2.40207 | 7.08519 | 5.2989 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.0000233436 | 0.500781 |
| morex | NOD | 0 | 1.18272 | 0 |
| morex | RAC | 0 | 0 | 0.00000000100594 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 2.90022 | 0.00234008 | 0.000000102417 |
| morex | LOD | 0.0000713385 | 0.649061 | 0.000160783 |
| morex | PAL | 0.673229 | 0.000341672 | 0 |
| morex | SEN | 0.000000371008 | 0.00000000641009 | 2.71113 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g41910.1 | +3 | 3e-167 | 481 | 239/275 (87%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.2 @ TAIR |
+3 | 1e-173 | 469 | 229/313 (73%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851677 FORWARD LENGTH=587 |
| BRACH PP3 | Bradi4g12180.2.p | +3 | 0.0 | 587 | 301/316 (95%) | pacid=32786406 transcript=Bradi4g12180.2 locus=Bradi4g12180 ID=Bradi4g12180.2.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 (1854 bp)
>BART1_0-u18118.021 1854 150831_barley_pseudomolecules ACAGGGTAACAGGGCTATCGTTGTTGATGAACCTGGTGTAACAAGGGATCGTTTGTATGG ACGATCTTATTGGGGTGATCAAGAGTTTATGGTTATTGATACTGGGGGTGTCATTACTCT ATCGAAGTCTCAAGCAGGTGTAATGGAAGAACTTGCCATCACAACTACTGTTGGTATGGA TGGGATTCCAATGGCCTCTCGAGAAGCTGCTATTGCTAGGATGCCATCAATGATTGAGAA GCAAGCTGTTGCCGCCGTTGAAGAAGCAGCTGTCCTTCTTTTCCTTGTGGATGGTCAGGC AGGCTGGTCTTGTGGCAGCTGATATAGAAATTGCTGATTGGTTACGTCGCAACTTCTCAC ACAAGTGCATCATACTTGCTGTAAACAAATGTGAATCGCCACGGAAAGGGCAAATGCAAG CATTAGAATTTTGGTCATTAGGGTTTTCACCTTTACCAATATCTGCTATTACCGGCACTG GAACTGGAGAGCTCCTGGATATGGTCTCTTCGGAACTGAAAAAGTTCGAGGCATTACAGG GACTAGAAGGATTGGATGATGTTGAAGAAGACGAAAACCGCGTTCCTGCTATTTCTATTG TTGGAAGACCAAATGTTGGAAAAAGTAGCATTCTAAATGCTTTGGTGGGAGAAGATAGAA CTATTGTGAGCCCAGTTAGTGGTACCACCCGTGATGCCATTGATACTGAGTTAACCACAG AGGATGGGCAGAAATACAAACTCATCGATACGGCTGGCATCCGACGGAGAGCAGCAGTTG CTTCTGCTGGCAGCACAACTGAAACACTTTCAGTAAAGCGTGCATTTAGTGCAATTCGTC GATCTGATGTAGTTGCCCTTGTTATTGAAGCGATGGCCTGCGTCTCTGAGCAGGATTATA AAATTGCAGAAAGGATTGAGAAAGAGGGAAAGGCATGTGTCATTGTTGTGAACAAATGGG ATACAATCCCAAACAAGAACAATGAGAGTACTACACATTATGAACAGGATGTAAGAGAGA AGCTTCGTGTACTTGACTGGGCACCTATTGTTTACTGTTCTGCGATAAATGGGAACAGCG TTGAAAAGATTATTTCTGCTGCTTCTTTGGTTGAAAAGGAAAGGTCTAGAAGACTCGGCA CCTCTATTCTTAACCAAGTGATTAGAGAAGCTGTAGCATTCAAAGCACCACCCCGAACAA GAGGTGGCAAAAGAGGCCGCGTTTATTACACAACACAGGATCTTGTTTTTCTCCTGCATG CAGGCTGCTGTTCGTCCACCAACGTTTGTTCTCTTCGTCAATGACGCAAAACTCTTCCCT GAGCCGTATCGGCGGTACATGCACAAGCAGCTCCGGTCTGACGCTGGATTCCCGGGCACG CCTATTCGTCTACTGTGGCGTAGCAGGAAGCGGACTGATAGGCAACAGAGGAGATCAAAT ACGGAGGCTCGTGGTGCACTTGTAGCGGCGAGTTAGCATGCGAAGCAATGTTGCTACCTT CAAAAACACAAGGAAAATGTGGCGAGCTAGGAGTACCACGGTATCCCTTTTCCTCCTTGT TCACGCGCGTTTCCTGGCTGCGAACGTGTGACTATCAATGTGCCAAGAAGTTAAGGTTCA TATTCCTCAACTACTGCCAAAGTTGAAGTGCGGTCACTGTACTCTAATAGTATAATTTTA TGGCCTCTCAACTGCTAGAATGTATGGAATTTTATGGCCCCTCTCTCTCTCTCAGATGAA CATCAACTTTTCTGTTTTCATGCGATGTTGCATGCATGTATGATTATTGATGGTTTCTTT TGTCTTCAATCTCATTTTGATGATGTGCTCATTTGCAACACAGATAGGCCTCGG
Protein Sequence (337 aa)
>BART1_0-u18118.021 337 150831_barley_pseudomolecules MVRQAGLVAADIEIADWLRRNFSHKCIILAVNKCESPRKGQMQALEFWSLGFSPLPISAI TGTGTGELLDMVSSELKKFEALQGLEGLDDVEEDENRVPAISIVGRPNVGKSSILNALVG EDRTIVSPVSGTTRDAIDTELTTEDGQKYKLIDTAGIRRRAAVASAGSTTETLSVKRAFS AIRRSDVVALVIEAMACVSEQDYKIAERIEKEGKACVIVVNKWDTIPNKNNESTTHYEQD VREKLRVLDWAPIVYCSAINGNSVEKIISAASLVEKERSRRLGTSILNQVIREAVAFKAP PRTRGGKRGRVYYTTQDLVFLLHAGCCSSTNVCSLRQ