- Transcript BART1_0-u53291.002
- Transcript IDBART1_0-u53291.002
- Gene IDBART1_0-u53291
Barley RTD
Exon Structure of BART1_0-u53291.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 367195109 | 367194554 | + |
| chr7H | 2 | 367196042 | 367195969 | + |
| chr7H | 3 | 367196298 | 367196124 | + |
| chr7H | 4 | 367196746 | 367196670 | + |
| chr7H | 5 | 367196913 | 367196832 | + |
| chr7H | 6 | 367197114 | 367197019 | + |
| chr7H | 7 | 367197307 | 367197240 | + |
| chr7H | 8 | 367198300 | 367198088 | + |
| chr7H | 9 | 367199113 | 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 | 0 | 0 | 0 |
| morex | ETI | 0 | 0.270012 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0.240768 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.625134 | 0 | 0.323238 |
| morex | LOD | 0 | 0.375977 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g12760.4 | +1 | 3e-89 | 288 | 136/193 (70%) | protein|YT521-B, putative, expressed |
| TAIR PP10 | AT3G13060 @ ARAPORT AT3G13060.2 @ TAIR |
+1 | 5e-57 | 204 | 94/160 (59%) | Symbols: ECT5 | evolutionarily conserved C-terminal region 5 | chr3:4180625-4183632 FORWARD LENGTH=634 |
| BRACH PP3 | Bradi3g18190.1.p | +1 | 9e-112 | 350 | 174/240 (73%) | 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 (2078 bp)
>BART1_0-u53291.002 2078 150831_barley_pseudomolecules CCTAAATACACGCTCTATTGCGGCGTCTATCTTATAAAAATTGAACAACATAGTTTCTTA CTTTTCTTTCTTTTCGGTTCAATATCTTGATAGGGATCTTAAATTCCCGACACACGTGTG TGCATGGCTTGCTTGTACGCTGAAGGGGACGGATAGCTGGCTTGATCAAATCCCAGATTT TCTCATTAGCAGCCTACGGACAGACTGTAACCGGATGTTAGTTCGTTGATGATGAATAAA GTCCCAATTCGATGAAAGAAAAATCCGGACCGGGATTGTGCGCGTGGACAAAACGAGCCG GCACAGGTCCGGTTTTTAAAGCCCGCGATGATTAGCGTGGCCGGACCTCTTCCTCTTCGT CTCGCATACTCACCAGCGTCAAACCCGACGGTGGAAGGAAGCCCCTCCTCGCCGACCATC GACGGCCTCCGTGTCTCCTCCAGCCGGAGAACGTAGCTACGCTAGCCCCTCTTTCCTCTC CTGTTTCGTCCCCCTCCTCCTCGTCCCATCTGCTGGAACATGGCGTTGAGCGGAGGAGAT TCGTCCGGATTCGTCGATTGCACAATTCTGCTGCAATCAGAAATTGTAGTTGATAATAAC CCCTCCAAGAGTACAAATACCAAAGAGCAGATTATTTCTATTACGGCTGAGAAAACAAGT GCTTCTGATGCGCGGGGCTCTACCTCCTTAAAGTCACCAAAAGGTGCACAAGAGAAGGCT AATTTTTTGGGAAAAGGTGGAGAACAGCCTTATGTCTACCAGCCCAATGTGTATGCTCCA CAGCCACAGACAGTCTATTCTGGAGGATATATCAACCCTTCAGGGCAATGGGAAGAGTAT CCCTATTATGTGAGTATGGAAGGAGTCCATTCTGCGTCACCTTCAATCATGCTATCTCCT GGGTATGCGAACAACCCCCAAATGATGTATGGAGCTTATTCTCCTGTTTCAACTGTTGGA GAGGGAGACCCTATGCTTCAGCAAGAGTACTTCCTTCCTGATGGTCTTCTCTATTCACCC ACAGCAGTGTACCGCCAACCATTTGGGTCATACAACAGAGCGGCAACACAACCAAGCAAT GCTTCGGGACTATTTGGGCAAGGGAATGCACCATTGGCTTTTGGAATGGTTAATGGCAGT GGTCAGTTCTGCGGTGTTGCTGAGATGATTGGACCTGTTGACTTCGACAGGAGCGTTGAT TATTGGCAGCAAGACAAGTGGAGTGGCCAGTTTCCTGTGAAGTGGCACATTATTAAGGAT GTCCCAAACACCCTACTCCGGCACATCACTCTTGAGAACAATGACAACAAACCTGTAACA AATAGCAGGGACACTCAGGAGGTCAAGCTAGAGTATGGTCTCCAGATGCTAAGCATATTC AAGAATCATGAGGCCGAGACAACCATTGTGGAGGACTTCGACTTCTATGAGCAACGGGAG GAAGCCTTGAAGGAAAATAGACGTCAGCAGCAGCCTGGCAGCGCAGAGTCCCTGAAGCCA ACAGATGCTAAGGCTGTAGGAAGTTCTGTTACTCATATCGTGGATTCATTTTCTCGAAGC GTCCAGCTGAAAGAGATCGAGAAAAGTGATAAGAGAACTGATGGTGCCATCTCAGTGAAT GGTTCACAGACAGCTACCGTCAAGGCCGAAAAAAGCACTGCAAACAAAACTACAGGTTCT GTGGAGGAGAGCAGTTGATTACCTCCTGCCATTTACTAGTTTGGAGCAGCAGTTGGATCC ATATGATTTGATGCTCGTCTGGAGTTGAGAAGGGAAAAAGCTGCCGATTCGGGTTTAGAT TTGGGCTGCTGCTGCTTGCAGTTGTGAACATCATACTCCTTATTTCGCCTCCATTTAGGT TATAGTTTTTCAATATCATAGTTTCAAAATTCTTGTTTGTGGATCCTTGCTTCTGTGTTC TTTCTTGTTTTCTTCTCTCTTTGTTTTACTTGCGTTGTGTCGTGAATGCTGTTCAGTTTT AGTGGCCTTCTCATCACTTTTGGTTTACCGTCTGTCATAAATGCTGCCCAGTTGTGTTGT GAATGATGTTCTCTTTTACTACTCCCTCCGTCTNNNNN
Protein Sequence (392 aa)
>BART1_0-u53291.002 392 150831_barley_pseudomolecules MALSGGDSSGFVDCTILLQSEIVVDNNPSKSTNTKEQIISITAEKTSASDARGSTSLKSP KGAQEKANFLGKGGEQPYVYQPNVYAPQPQTVYSGGYINPSGQWEEYPYYVSMEGVHSAS PSIMLSPGYANNPQMMYGAYSPVSTVGEGDPMLQQEYFLPDGLLYSPTAVYRQPFGSYNR AATQPSNASGLFGQGNAPLAFGMVNGSGQFCGVAEMIGPVDFDRSVDYWQQDKWSGQFPV KWHIIKDVPNTLLRHITLENNDNKPVTNSRDTQEVKLEYGLQMLSIFKNHEAETTIVEDF DFYEQREEALKENRRQQQPGSAESLKPTDAKAVGSSVTHIVDSFSRSVQLKEIEKSDKRT DGAISVNGSQTATVKAEKSTANKTTGSVEESS