- Transcript BART1_0-u53291.001
- Transcript IDBART1_0-u53291.001
- Gene IDBART1_0-u53291
Barley RTD
Exon Structure of BART1_0-u53291.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 367195109 | 367194554 | + |
| chr7H | 2 | 367196042 | 367195969 | + |
| chr7H | 3 | 367196298 | 367196124 | + |
| chr7H | 4 | 367196746 | 367196670 | + |
| chr7H | 5 | 367197114 | 367196832 | + |
| chr7H | 6 | 367197307 | 367197240 | + |
| chr7H | 7 | 367197953 | 367197465 | + |
| chr7H | 8 | 367198300 | 367198088 | + |
| chr7H | 9 | 367199117 | 367198377 | + |
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 | 2.66547 | 18.7245 | 18.4536 |
| morex | ETI | 8.27243 | 11.021 | 3.1873 |
| morex | LEA | 11.7202 | 15.5341 | 13.63 |
| morex | EPI | 1.88918 | 0.00152638 | 2.92511 |
| morex | ROO | 5.59728 | 7.39783 | 4.7078 |
| morex | ROO2 | 10.3338 | 8.71451 | 13.4562 |
| morex | NOD | 15.5132 | 5.70647 | 4.92397 |
| morex | RAC | 10.5652 | 8.97307 | 8.5945 |
| morex | INF1 | 17.3921 | 13.0336 | 13.4698 |
| morex | INF2 | 10.9943 | 8.26174 | 11.4467 |
| morex | CAR5 | 14.857 | 7.57653 | 16.1794 |
| morex | CAR15 | 5.5557 | 5.94092 | 7.59504 |
| morex | LEM | 7.3031 | 8.73341 | 7.52384 |
| morex | LOD | 8.15395 | 1.79458 | 9.87384 |
| morex | PAL | 3.46851 | 6.48006 | 6.00421 |
| morex | SEN | 1.90922 | 13.0069 | 2.01891 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g12760.2 | +1 | 0.0 | 892 | 431/571 (75%) | protein|YT521-B, putative, expressed |
| TAIR PP10 | AT3G13060 @ ARAPORT AT3G13060.2 @ TAIR |
+1 | 4e-122 | 384 | 234/539 (43%) | Symbols: ECT5 | evolutionarily conserved C-terminal region 5 | chr3:4180625-4183632 FORWARD LENGTH=634 |
| BRACH PP3 | Bradi3g18190.1.p | +1 | 0.0 | 1014 | 489/593 (82%) | pacid=32821513 transcript=Bradi3g18190.1 locus=Bradi3g18190 ID=Bradi3g18190.1.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 (2676 bp)
>BART1_0-u53291.001 2676 150831_barley_pseudomolecules CCTAAATACACGCTCTATTGCGGCGTCTATCTTATAAAAATTGAACAACATAGTTTCTTA CTTTTCTTTCTTTTCGGTTCAATATCTTGATAGGGATCTTAAATTCCCGACACACGTGTG TGCATGGCTTGCTTGTACGCTGAAGGGGACGGATAGCTGGCTTGATCAAATCCCAGATTT TCTCATTAGCAGCCTACGGACAGACTGTAACCGGATGTTAGTTCGTTGATGATGAATAAA GTCCCAATTCGATGAAAGAAAAATCCGGACCGGGATTGTGCGCGTGGACAAAACGAGCCG GCACAGGTCCGGTTTTTAAAGCCCGCGATGATTAGCGTGGCCGGACCTCTTCCTCTTCGT CTCGCATACTCACCAGCGTCAAACCCGACGGTGGAAGGAAGCCCCTCCTCGCCGACCATC GACGGCCTCCGTGTCTCCTCCAGCCGGAGAACGTAGCTACGCTAGCCCCTCTTTCCTCTC CTGTTTCGTCCCCCTCCTCCTCGTCCCATCTGCTGGAACATGGCGTTGAGCGGAGGAGAT TCGTCCGGATTCGTCGATTGCACAATTCTGCTGCAATCAGAAATTGTAGTTGATAATAAC CCCTCCAAGAGTACAAATACCAAAGAGCAGATTATTTCTATTACGGCTGAGAAAACAAGT GCTTCTGATGCGCGGGGCTCTACCTCCTTAAAGTCACCAAAAGGTGCACAAGAGAAGGCT AATTTTTTGGGAAAAGGTGGAGAACAGCCTTATGTCTACCAGCCCAATGTGTATGCTCCA CAGCCACAGACAGTCTATTCTGGAGGATATATCAACCCTTCAGGGCAATGGGAAGAGTAT CCCTATTATGTGAGTATGGAAGGAGTCCATTCTGCGTCACCTTCAATCATGCTATCTCCT GGGTATGCGAACAACCCCCAAATGATGTATGGAGCTTATTCTCCTGTTTCAACTGTTGGA GAGGGTCAGTCCTACTCCCCTATGCACTTCCCCTTCTCAAATCCGTACTACCAGCCACCG GCTTCTCTTAGTATGGGATATTCAAATTCTGGTACTGGAATGTCTCAAGGAGACCCTATG CTTCAGCAAGAGTACTTCCTTCCTGATGGTCTTCTCTATTCACCCACAGCAGTGTACCGC CAACCATTTGGGTCATACAACAGAGCGGCAACACAACCAAGCAATGCTTCGGGACTATTT GGGCAAGGGAATGCACCATTGGCTTTTGGAATGCAGCATGGAACAATGTATAATTCTGGA TCCTACAAGGCACACCAACAAGCTAGTAAATATGGAGGCACTACTCCTAATTGGGGTTCT GCCGGTCGTAGATTTAATAATTTTGACTGCAACTCCAGTCAACAAAGGGGGAGCATGCCA TTCAATATCCAGAATGGTGCTCTGGAGTTTCTGAACGAGCAAAACCGCGGCCCACGTGCT GCAAAACCAAAGAAACAAGACAGAGACAATTCTTTAGTAGATGACAAAAGCGAGAAAACC ACTCTGCTTATTGACAGTGAACTGTACAATCGTCCTGATTTTGCCACGGAGTACAAGGAT GCGATTTTTTTTGTAATTAAATCATACACAGAGGACCATGTACATAGGAGCATTAAGTAC AATGTCTGGGCCAGCACAGCTAGTGGGAATAGAAAGCTGGATTCAGCTTATCGTGCGGCC AAACAGAAAGAAGACCATTCCCGTGTTTTCTTGTTCTTCTCGGTTAATGGCAGTGGTCAG TTCTGCGGTGTTGCTGAGATGATTGGACCTGTTGACTTCGACAGGAGCGTTGATTATTGG CAGCAAGACAAGTGGAGTGGCCAGTTTCCTGTGAAGTGGCACATTATTAAGGATGTCCCA AACACCCTACTCCGGCACATCACTCTTGAGAACAATGACAACAAACCTGTAACAAATAGC AGGGACACTCAGGAGGTCAAGCTAGAGTATGGTCTCCAGATGCTAAGCATATTCAAGAAT CATGAGGCCGAGACAACCATTGTGGAGGACTTCGACTTCTATGAGCAACGGGAGGAAGCC TTGAAGGAAAATAGACGTCAGCAGCAGCCTGGCAGCGCAGAGTCCCTGAAGCCAACAGAT GCTAAGGCTGTAGGAAGTTCTGTTACTCATATCGTGGATTCATTTTCTCGAAGCGTCCAG CTGAAAGAGATCGAGAAAAGTGATAAGAGAACTGATGGTGCCATCTCAGTGAATGGTTCA CAGACAGCTACCGTCAAGGCCGAAAAAAGCACTGCAAACAAAACTACAGGTTCTGTGGAG GAGAGCAGTTGATTACCTCCTGCCATTTACTAGTTTGGAGCAGCAGTTGGATCCATATGA TTTGATGCTCGTCTGGAGTTGAGAAGGGAAAAAGCTGCCGATTCGGGTTTAGATTTGGGC TGCTGCTGCTTGCAGTTGTGAACATCATACTCCTTATTTCGCCTCCATTTAGGTTATAGT TTTTCAATATCATAGTTTCAAAATTCTTGTTTGTGGATCCTTGCTTCTGTGTTCTTTCTT GTTTTCTTCTCTCTTTGTTTTACTTGCGTTGTGTCGTGAATGCTGTTCAGTTTTAGTGGC CTTCTCATCACTTTTGGTTTACCGTCTGTCATAAATGCTGCCCAGTTGTGTTGTGAATGA TGTTCTCTTTTACTACTCCCTCCGTCTNNNNNNNNN
Protein Sequence (590 aa)
>BART1_0-u53291.001 590 150831_barley_pseudomolecules MALSGGDSSGFVDCTILLQSEIVVDNNPSKSTNTKEQIISITAEKTSASDARGSTSLKSP KGAQEKANFLGKGGEQPYVYQPNVYAPQPQTVYSGGYINPSGQWEEYPYYVSMEGVHSAS PSIMLSPGYANNPQMMYGAYSPVSTVGEGQSYSPMHFPFSNPYYQPPASLSMGYSNSGTG MSQGDPMLQQEYFLPDGLLYSPTAVYRQPFGSYNRAATQPSNASGLFGQGNAPLAFGMQH GTMYNSGSYKAHQQASKYGGTTPNWGSAGRRFNNFDCNSSQQRGSMPFNIQNGALEFLNE QNRGPRAAKPKKQDRDNSLVDDKSEKTTLLIDSELYNRPDFATEYKDAIFFVIKSYTEDH VHRSIKYNVWASTASGNRKLDSAYRAAKQKEDHSRVFLFFSVNGSGQFCGVAEMIGPVDF DRSVDYWQQDKWSGQFPVKWHIIKDVPNTLLRHITLENNDNKPVTNSRDTQEVKLEYGLQ MLSIFKNHEAETTIVEDFDFYEQREEALKENRRQQQPGSAESLKPTDAKAVGSSVTHIVD SFSRSVQLKEIEKSDKRTDGAISVNGSQTATVKAEKSTANKTTGSVEESS