- Transcript BART1_0-u53291.013
- Transcript IDBART1_0-u53291.013
- Gene IDBART1_0-u53291
Barley RTD
Exon Structure of BART1_0-u53291.013
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 367195109 | 367194862 | + |
| chr7H | 2 | 367196042 | 367195969 | + |
| chr7H | 3 | 367196298 | 367196124 | + |
| chr7H | 4 | 367197114 | 367196670 | + |
| chr7H | 5 | 367197307 | 367197196 | + |
| chr7H | 6 | 367198300 | 367197468 | + |
| chr7H | 7 | 367199080 | 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 | 2.09578 | 2.00209 | 0.650211 |
| morex | ETI | 3.44627 | 3.12275 | 1.76322 |
| morex | LEA | 0.920222 | 1.48029 | 1.26374 |
| morex | EPI | 3.70644 | 3.84962 | 3.85594 |
| morex | ROO | 0 | 1.26922 | 0 |
| morex | ROO2 | 0.599885 | 0.333098 | 0.637838 |
| morex | NOD | 0 | 0.192309 | 0.983923 |
| morex | RAC | 1.19645 | 1.34067 | 0.916832 |
| morex | INF1 | 4.91549 | 0.179282 | 3.55482 |
| morex | INF2 | 3.25115 | 1.2801 | 1.84567 |
| morex | CAR5 | 0 | 0 | 1.09201 |
| morex | CAR15 | 0.482079 | 1.13242 | 0 |
| morex | LEM | 0.613936 | 0.897013 | 0.338319 |
| morex | LOD | 0 | 0.140386 | 0.575642 |
| morex | PAL | 0.142317 | 0.0390894 | 0 |
| morex | SEN | 1.21126 | 1.21108 | 2.45211 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g12760.1 | +2 | 7e-164 | 304 | 144/187 (77%) | protein|YT521-B, putative, expressed |
| TAIR PP10 | AT3G13060 @ ARAPORT AT3G13060.2 @ TAIR |
+1 | 3e-55 | 202 | 94/160 (59%) | Symbols: ECT5 | evolutionarily conserved C-terminal region 5 | chr3:4180625-4183632 FORWARD LENGTH=634 |
| BRACH PP3 | Bradi3g18190.2.p | +2 | 0.0 | 320 | 151/186 (81%) | pacid=32821514 transcript=Bradi3g18190.2 locus=Bradi3g18190 ID=Bradi3g18190.2.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 (2591 bp)
>BART1_0-u53291.013 2591 150831_barley_pseudomolecules CCGGTTTTTAAAGCCCGCGATGATTAGCGTGGCCGGACCTCTTCCTCTTCGTCTCGCATA CTCACCAGCGTCAAACCCGACGGTGGAAGGAAGCCCCTCCTCGCCGACCATCGACGGCCT CCGTGTCTCCTCCAGCCGGAGAACGTAGCTACGCTAGCCCCTCTTTCCTCTCCTGTTTCG TCCCCCTCCTCCTCGTCCCATCTGCTGGAACATGGCGTTGAGCGGAGGAGATTCGTCCGG ATTCGTCGATTGCACAATTCTGCTGCAATCAGAAATTGTAGTTGATAATAACCCCTCCAA GAGTACAAATACCAAAGAGCAGATTATTTCTATTACGGCTGAGAAAACAAGTGCTTCTGA TGCGCGGGGCTCTACCTCCTTAAAGTCACCAAAAGGTGCACAAGAGAAGGCTAATTTTTT GGGAAAAGGTGGAGAACAGCCTTATGTCTACCAGCCCAATGTGTATGCTCCACAGCCACA GACAGTCTATTCTGGAGGATATATCAACCCTTCAGGGCAATGGGAAGAGTATCCCTATTA TGTGAGTATGGAAGGAGTCCATTCTGCGTCACCTGTAAGTAGCTGGCCGTTGAACTTGTT TCACTTTCTTAATTATGTTCCCAAGTGTTTTGCTGATGTAATTATACAATGTTAACTAGT CAATCATGCTATCTCCTGGGTATGCGAACAACCCCCAAATGATGTATGGAGCTTATTCTC CTGTTTCAACTGTTGGAGAGGGTCAGTCCTACTCCCCTATGCACTTCCCCTTCTCAAATC CGTACTACCAGCCACCGGCTTCTCTTAGTATGGGATATTCAAATTCTGGTACTGGAATGT CTCAAGGAGACCCTATGCTTCAGCAAGAGTACTTCCTTCCTGATGGTCTTCTCTATTCAC CCACAGCAGTGTACCGCCAACCATTTGGGTCATACAACAGAGATTGGTCAGAGCCATGCC AAACTAATTGTGAGTTTCTTCCGCAGCGGCAACACAACCAAGCAATGCTTCGGGACTATT TGGGCAAGGGAATGCACCATTGGCTTTTGGAATGCATGGAACAATGTATAATTCTGGATC CTACAAGGCACACCAACAAGCTAGTAAATATGGAGGCACTACTCCTAATTGGGGTTCTGC CGGTCGTAGATTTAATAATTTTGACTGCAACTCCAGTCAACAAAGGGGGAGCATGCCATT CAATATCCAGAATGGTGCTCTGGAGTTTCTGAACGAGCAAAACCGCGGCCCACGTGCTGC AAAACCAAAGAAACAAGACAGAGACAATTCTTTAGTAGATGACAAAAGCGAGAAAACCAC TCTGCTTATTGACAGTGAACTGTACAATCGTCCTGATTTTGCCACGGAGTACAAGGATGC GATTTTTTTTGTAATTAAATCATACACAGAGGACCATGTACATAGGAGCATTAAGTACAA TGTCTGGGCCAGCACAGCTAGTGGGAATAGAAAGCTGGATTCAGCTTATCGTGCGGCCAA ACAGAAAGAAGACCATTCCCGTGTTTTCTTGTTCTTCTCGGTAAGACTAGCCCCTTTCTT TTTGTAGTTTATGCTCCTGTTGATGTAAGTACGAGGCTGAGAATGATGCATTGGATCTAC ATGCTTTGTGTCTGTAGAGATGTGAAATTTATTCTGATTCATAACTGCTTATAGGTTAAT GGCAGTGGTCAGTTCTGCGGTGTTGCTGAGATGATTGGACCTGTTGACTTCGACAGGAGC GTTGATTATTGGCAGCAAGACAAGTGGAGTGGCCAGTTTCCTGTGAAGTGGCACATTATT AAGGATGTCCCAAACACCCTACTCCGGCACATCACTCTTGAGAACAATGACAACAAACCT GTAACAAATAGCAGGGACACTCAGGAGGTCAAGCTAGAGTATGGTCTCCAGATGCTAAGC ATATTCAAGAATCATGAGGCCGAGACAACCATTGTGGAGGACTTCGACTTCTATGAGCAA CGGGAGGAAGCCTTGAAGGAAAATAGACGTCAGCAGCAGCCTGGCAGCGCAGAGTCCCTG AAGCCAACAGATGCTAAGGCTGTAGGAAGTTCTGTTACTCATATCGTGGATTCATTTTCT CGAAGCGTCCAGCTGAAAGAGATCGAGAAAAGTGATAAGAGAACTGATGGTGCCATCTCA GTGAATGGTTCACAGACAGCTACCGTCAAGGCCGAAAAAAGCACTGCAAACAAAACTACA GGTTCTGTGGAGGAGAGCAGTTGATTACCTCCTGCCATTTACTAGTTTGGAGCAGCAGTT GGATCCATATGATTTGATGCTCGTCTGGAGTTGAGAAGGGAAAAAGCTGCCGATTCGGGT TTAGATTTGGGCTGCTGCTGCTTGCAGTTGTGAACATCATACTCCTTATTTCGCCTCCAT TTAGGTTATAGTTTTTCAATATCATAGTTTCAAAATTCTTGTTTGTGGATCCTTGCTTCT GTGTTCTTTCTTGTTTTCTTCTCTCTTTGTTTTACTTGCGTTGTGTCGTGAATGCTGTTC AGTTTTAGTGGCCTTCTCATCACTTTTGGTTTACCGTCTGTCATAAATGCTGCCCAGTTG TGTTGTGAATG
Protein Sequence (177 aa)
>BART1_0-u53291.013 177 150831_barley_pseudomolecules MIGPVDFDRSVDYWQQDKWSGQFPVKWHIIKDVPNTLLRHITLENNDNKPVTNSRDTQEV KLEYGLQMLSIFKNHEAETTIVEDFDFYEQREEALKENRRQQQPGSAESLKPTDAKAVGS SVTHIVDSFSRSVQLKEIEKSDKRTDGAISVNGSQTATVKAEKSTANKTTGSVEESS