- Transcript BART1_0-u18118.003
- Transcript IDBART1_0-u18118.003
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30560371 | 30559931 | + |
| chr3H | 2 | 30560762 | 30560701 | + |
| chr3H | 3 | 30560965 | 30560882 | + |
| chr3H | 4 | 30561371 | 30561078 | + |
| chr3H | 5 | 30561823 | 30561684 | + |
| chr3H | 6 | 30562313 | 30562226 | + |
| chr3H | 7 | 30562615 | 30562410 | + |
| chr3H | 8 | 30562874 | 30562713 | + |
| chr3H | 9 | 30563162 | 30562969 | + |
| chr3H | 10 | 30563897 | 30563747 | + |
| chr3H | 11 | 30564847 | 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 | 2.14267 | 4.87109 | 0 |
| morex | ETI | 0.0000000592966 | 0.00000000421084 | 0.0000000739965 |
| morex | LEA | 7.72534 | 10.1835 | 0 |
| morex | EPI | 0.0000000145199 | 0 | 0 |
| morex | ROO | 0 | 0.33086 | 0.690717 |
| morex | ROO2 | 0.318878 | 0.0000000100572 | 0.000000038226 |
| morex | NOD | 1.84274 | 0 | 1.18094 |
| morex | RAC | 0.00301601 | 0.00024607 | 0.00000161536 |
| morex | INF1 | 4.35385 | 5.32832 | 4.52914 |
| morex | INF2 | 0.00000121117 | 3.94099 | 7.44261 |
| morex | CAR5 | 3.33669 | 6.18098 | 3.34783 |
| morex | CAR15 | 1.55734 | 1.13186 | 0.496609 |
| morex | LEM | 0 | 0.000000104819 | 1.96039 |
| morex | LOD | 0.00000000269744 | 0.000000000187841 | 0.00000000435648 |
| morex | PAL | 0.0000000171566 | 0 | 0.0764193 |
| morex | SEN | 0.005045 | 0.0244076 | 0.000000402467 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g41910.1 | +2 | 4e-172 | 503 | 240/266 (90%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.1 @ TAIR |
+2 | 0.0 | 440 | 207/264 (78%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851980 FORWARD LENGTH=663 |
| BRACH PP3 | Bradi4g12180.2.p | +2 | 0.0 | 546 | 270/292 (92%) | 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 (2651 bp)
>BART1_0-u18118.003 2651 150831_barley_pseudomolecules GGACAGGAGGTCCCCGCCGGCTGTAGATGCTCTTATCCCCTTCCGTCCCCCGCTGCCCCA GGCCTCGCGCTCTACGGCGCGCCATGGCCATGCCTTCCACTCCTTCCTCCTCGCGGCCGC CCATGCTGCACCCCGCCTCCAAAACTCCGAACCCGCCCCGCCTGCTGCCGCTCGTCACCA GAGGCGCTGCTGCCCCTCGCCCTCCTCTGCTCATCTCCTTCGCTCCGCCCGCGCCTGGTC GTCGCGGGCTCCGCGCCGCTGCCGCCCAACAACCCGCCTACGAAGATGGGGAGGAGGAAG AAGATGGGGAGGAGGATGGGGAGTGTTACAGCGAGGAGGAGGAGGAGGATGAGGAGGAGT TGGACGTGGAGGCGATGGAGGAAGAGGCGCGGCGCGCCGCCGCCGACCTCGCCGCGCGCC TCGACCGCGAGCTCCGCGTCGATGGTGATGTTCGGGAGAAAAGAAGAACCATGAGGGACA AGACATCAACAACATCTAAACATATCCCAGACAGTAAGCTTCCAAAGGTGGCTATTATTG GTAGACCTAATGTGGGTAAATCTGCGCTGTTCAATCGGCTTGTCGGGGGTAACAGGGCTA TCGTTGTTGATGAACCTGGTGTAACAAGGGATCGTTTGTATGGACGATCTTATTGGGGTG ATCAAGAGTTTATGGTTATTGATACTGGGGGTGTCATTACTCTATCGAAGTCTCAAGCAG GTGTAATGGAAGAACTTGCCATCACAACTACTGTTGGTATGGATGGGATTCCAATGGCCT CTCGAGAAGCTGCTATTGCTAGGATGCCATCAATGATTGAGAAGCAAGCTGTTGCCGCCG TTGAAGAAGCAGCTGTCCTTCTTTTCCTTGTGGATGGTCAGGCTGGTCTTGTGGCAGCTG ATATAGAAATTGCTGATTGGTTACGTCGCAACTTCTCACACAAGTGCATCATACTTGCTG TAAACAAATGTGAATCGCCACGGAAAGGGCAAATGCAAGCATTAGAATTTTGGTCATTAG GGTTTTCACCTTTACCAATATCTGCTATTACCGGCACTGGAACTGGAGAGCTCCTGGATA TGGTCTCTTCGGAACTGAAAAAGTTCGAGTTTAGGCATTACAGGGACTAGAAGGATTGGA TGATGTTGAAGAAGACGAAAACCGCGTTCCTGCTATTTCTATTGTTGGAAGACCAAATGT TGGAAAAAGTAGCATTCTAAATGCTTTGGTGGGAGAAGATAGAACTATTGTGAGCCCAGT TAGTGGTACCACCCGTGATGCCATTGATACTGAGTTAACCACAGAGGATGGGCAGAAATA CAAACTCATCGATACGGCTGGCATCCGACGGAGAGCAGCAGTTGCTTCTGCTGGCAGCAC AACTGAAACACTTTCAGTAAAGCGTGCATTTAGTGCAATTCGTCGATCTGATGTAGTTGC CCTTGTTATTGAAGCGATGGCCTGCGTCTCTGAGCAGGATTATAAAATTGCAGAAAGGAT TGAGAAAGAGGGAAAGGCATGTGTCATTGTTGTGAACAAATGGGATACAATCCCAAACAA GAACAATGAGAGTACTACACATTATGAACAGGATGTAAGAGAGAAGCTTCGTGTACTTGA CTGGGCACCTATTGTTTACTGTTCTGCGATAAATGGGAACAGCGTTGAAAAGATTATTTC TGCTGCTTCTTTGGTTGAAAAGGAAAGGTCTAGAAGACTCGGCACCTCTATTCTTAACCA AGTGATTAGAGAAGCTGTAGCATTCAAAGCACCACCCCGAACAAGAGGTGGCAAAAGAGG CCGCGTTTATTACACAACACAGGCTGCTGTTCGTCCACCAACGTTTGTTCTCTTCGTCAA TGACGCAAAACTCTTCCCTGAGCCGTATCGGCGGTACATGCACAAGCAGCTCCGGTCTGA CGCTGGATTCCCGGGCACGCCTATTCGTCTACTGTGGCGTAGCAGGAAGCGGACTGATAG GCAACAGAGGAGATCAAATACGGAGGCTCGTGGTGCACTTGTAGCGGCGAGTTAGCATGC GAAGCAATGTTGCTACCTTCAAAAACACAAGGAAAATGTGGCGAGCTAGGAGTACCACGG TATCCCTTTTCCTCCTTGTTCACGCGCGTTTCCTGGCTGCGAACGTGTGACTATCAATGT GCCAAGAAGTTAAGGTTCATATTCCTCAACTACTGCCAAAGTTGAAGTGCGGTCACTGTA CTCTAATAGTATAATTTTATGGCCTCTCAACTGCTAGAATGTATGGAATTTTATGGCCCC TCTCTCTCTCTCAGATGAACATCAACTTTTCTGTTTTCATGCGATGTTGCATGCATGTAT GATTATTGATGGTTTCTTTTGTCTTCAATCTCATTTTGATGATGTGCTCATTTGCAACAC AGATAGGCCTCGGTACGAAAAAAATGGATTGTGCGTTATTGATTAAAATGACAGCATAAA TAGAATTTTAAAGTTGTTAAATAGGTAAAATAACATAATATTTAGATTTCATGCATCACT GTAGATTCAAATTACATTATAAATAAACTTTTAATAAATTAAATAGGTAAACTAACATTA TATTTATATTCTACACATTTTTTGAATCAAAGTTCATATATGATAATTTAAAATTGAAGT TATGGTTTAGA
Protein Sequence (367 aa)
>BART1_0-u18118.003 367 150831_barley_pseudomolecules MLLSPSVPRCPRPRALRRAMAMPSTPSSSRPPMLHPASKTPNPPRLLPLVTRGAAAPRPP LLISFAPPAPGRRGLRAAAAQQPAYEDGEEEEDGEEDGECYSEEEEEDEEELDVEAMEEE ARRAAADLAARLDRELRVDGDVREKRRTMRDKTSTTSKHIPDSKLPKVAIIGRPNVGKSA LFNRLVGGNRAIVVDEPGVTRDRLYGRSYWGDQEFMVIDTGGVITLSKSQAGVMEELAIT TTVGMDGIPMASREAAIARMPSMIEKQAVAAVEEAAVLLFLVDGQAGLVAADIEIADWLR RNFSHKCIILAVNKCESPRKGQMQALEFWSLGFSPLPISAITGTGTGELLDMVSSELKKF EFRHYRD