- Transcript BART1_0-u18118.004
- Transcript IDBART1_0-u18118.004
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30560371 | 30559932 | + |
| chr3H | 2 | 30560762 | 30560701 | + |
| chr3H | 3 | 30560965 | 30560882 | + |
| chr3H | 4 | 30561366 | 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 | 30564773 | 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 | 0.00000408115 | 0.0126189 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0.0000000221487 | 0.00000000492701 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0.000000000558896 | 0 |
| morex | ROO2 | 0.0000000182404 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0.00913744 |
| morex | INF1 | 0 | 0 | 0.00000649917 |
| morex | INF2 | 0.000149811 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 1.12764 |
| morex | CAR15 | 0.00599819 | 0 | 0.0000000639227 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0.000000000724274 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g41910.1 | +3 | 0.0 | 563 | 277/317 (87%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.1 @ TAIR |
+3 | 0.0 | 548 | 267/354 (75%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851980 FORWARD LENGTH=663 |
| BRACH PP3 | Bradi4g12180.1.p | +3 | 0.0 | 687 | 353/386 (91%) | 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 (2557 bp)
>BART1_0-u18118.004 2557 150831_barley_pseudomolecules GACAGGAGGTCCCCGCCGGCTGTAGATGCTCTTATCCCCTTCCGTCCCCCGCTGCCCCAG GCCTCGCGCTCTACGGCGCGCCATGGCCATGCCTTCCACTCCTTCCTCCTCGCGGCCGCC CATGCTGCACCCCGCCTCCAAAACTCCGAACCCGCCCCGCCTGCTGCCGCTCGTCACCAG AGGCGCTGCTGCCCCTCGCCCTCCTCTGCTCATCTCCTTCGCTCCGCCCGCGCCTGGTCG TCGCGGGCTCCGCGCCGCTGCCGCCCAACAACCCGCCTACGAAGATGGGGAGGAGGAAGA AGATGGGGAGGAGGATGGGGAGTGTTACAGCGAGGAGGAGGAGGAGGATGAGGAGGAGTT GGACGTGGAGGCGATGGAGGAAGAGGCGCGGCGCGCCGCCGCCGACCTCGCCGCGCGCCT CGACCGCGAGCTCCGCGTCGATGGTGATGTTCGGGAGAAAAGAAGAACCATGAGGGACAA GACATCAACAACATCTAAACATATCCCAGACAGTAAGCTTCCAAAGGTGGCTATTATTGG TAGACCTAATGTGGGTAAATCTGCGCTGTTCAATCGGCTTGTCGGGGGTAACAGGGCTAT CGTTGTTGATGAACCTGGTGTAACAAGGGATCGTTTGTATGGACGATCTTATTGGGGTGA TCAAGAGTTTATGGTTATTGATACTGGGGGTGTCATTACTCTATCGAAGTCTCAAGCAGG TGTAATGGAAGAACTTGCCATCACAACTACTGTTGGTATGGATGGGATTCCAATGGCCTC TCGAGAAGCTGCTATTGCTAGGATGCCATCAATGATTGAGAAGCAAGCTGTTGCCGCCGT TGAAGAAGCAGCTGTCCTTCTTTTCCTTGTGGATGGCTGGTCTTGTGGCAGCTGATATAG AAATTGCTGATTGGTTACGTCGCAACTTCTCACACAAGTGCATCATACTTGCTGTAAACA AATGTGAATCGCCACGGAAAGGGCAAATGCAAGCATTAGAATTTTGGTCATTAGGGTTTT CACCTTTACCAATATCTGCTATTACCGGCACTGGAACTGGAGAGCTCCTGGATATGGTCT CTTCGGAACTGAAAAAGTTCGAGGGACTAGAAGGATTGGATGATGTTGAAGAAGACGAAA ACCGCGTTCCTGCTATTTCTATTGTTGGAAGACCAAATGTTGGAAAAAGTAGCATTCTAA ATGCTTTGGTGGGAGAAGATAGAACTATTGTGAGCCCAGTTAGTGGTACCACCCGTGATG CCATTGATACTGAGTTAACCACAGAGGATGGGCAGAAATACAAACTCATCGATACGGCTG GCATCCGACGGAGAGCAGCAGTTGCTTCTGCTGGCAGCACAACTGAAACACTTTCAGTAA AGCGTGCATTTAGTGCAATTCGTCGATCTGATGTAGTTGCCCTTGTTATTGAAGCGATGG CCTGCGTCTCTGAGCAGGATTATAAAATTGCAGAAAGGATTGAGAAAGAGGGAAAGGCAT GTGTCATTGTTGTGAACAAATGGGATACAATCCCAAACAAGAACAATGAGAGTACTACAC ATTATGAACAGGATGTAAGAGAGAAGCTTCGTGTACTTGACTGGGCACCTATTGTTTACT GTTCTGCGATAAATGGGAACAGCGTTGAAAAGATTATTTCTGCTGCTTCTTTGGTTGAAA AGGAAAGGTCTAGAAGACTCGGCACCTCTATTCTTAACCAAGTGATTAGAGAAGCTGTAG CATTCAAAGCACCACCCCGAACAAGAGGTGGCAAAAGAGGCCGCGTTTATTACACAACAC AGGCTGCTGTTCGTCCACCAACGTTTGTTCTCTTCGTCAATGACGCAAAACTCTTCCCTG AGCCGTATCGGCGGTACATGCACAAGCAGCTCCGGTCTGACGCTGGATTCCCGGGCACGC CTATTCGTCTACTGTGGCGTAGCAGGAAGCGGACTGATAGGCAACAGAGGAGATCAAATA CGGAGGCTCGTGGTGCACTTGTAGCGGCGAGTTAGCATGCGAAGCAATGTTGCTACCTTC AAAAACACAAGGAAAATGTGGCGAGCTAGGAGTACCACGGTATCCCTTTTCCTCCTTGTT CACGCGCGTTTCCTGGCTGCGAACGTGTGACTATCAATGTGCCAAGAAGTTAAGGTTCAT ATTCCTCAACTACTGCCAAAGTTGAAGTGCGGTCACTGTACTCTAATAGTATAATTTTAT GGCCTCTCAACTGCTAGAATGTATGGAATTTTATGGCCCCTCTCTCTCTCTCAGATGAAC ATCAACTTTTCTGTTTTCATGCGATGTTGCATGCATGTATGATTATTGATGGTTTCTTTT GTCTTCAATCTCATTTTGATGATGTGCTCATTTGCAACACAGATAGGCCTCGGTACGAAA AAAATGGATTGTGCGTTATTGATTAAAATGACAGCATAAATAGAATTTTAAAGTTGTTAA ATAGGTAAAATAACATAATATTTAGATTTCATGCATCACTGTAGATTCAAATTACATTAT AAATAAACTTTTAATAAATTAAATAGGTAAACTAACA
Protein Sequence (380 aa)
>BART1_0-u18118.004 380 150831_barley_pseudomolecules MAGLVAADIEIADWLRRNFSHKCIILAVNKCESPRKGQMQALEFWSLGFSPLPISAITGT GTGELLDMVSSELKKFEGLEGLDDVEEDENRVPAISIVGRPNVGKSSILNALVGEDRTIV SPVSGTTRDAIDTELTTEDGQKYKLIDTAGIRRRAAVASAGSTTETLSVKRAFSAIRRSD VVALVIEAMACVSEQDYKIAERIEKEGKACVIVVNKWDTIPNKNNESTTHYEQDVREKLR VLDWAPIVYCSAINGNSVEKIISAASLVEKERSRRLGTSILNQVIREAVAFKAPPRTRGG KRGRVYYTTQAAVRPPTFVLFVNDAKLFPEPYRRYMHKQLRSDAGFPGTPIRLLWRSRKR TDRQQRRSNTEARGALVAAS