- Transcript BART1_0-u27957.017
- Transcript IDBART1_0-u27957.017
- Gene IDBART1_0-u27957
Barley RTD
Exon Structure of BART1_0-u27957.017
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 166877905 | 166877310 | - |
| chr4H | 2 | 166878412 | 166878131 | - |
| chr4H | 3 | 166878985 | 166878513 | - |
| chr4H | 4 | 166879379 | 166879237 | - |
| chr4H | 5 | 166880213 | 166879812 | - |
| chr4H | 6 | 166882942 | 166880335 | - |
| chr4H | 7 | 166885357 | 166884994 | - |
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 | 2.3795 | 2.20164 | 2.57522 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0.682604 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0.0634587 | 0.0604584 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0.000000103418 | 1.17757 |
| morex | CAR15 | 0.725034 | 0 | 0.637655 |
| morex | LEM | 0 | 0.000000000730504 | 0.00000115022 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0.000000000998627 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g47970.1 | +3 | 0.0 | 759 | 374/436 (86%) | protein|AAA-type ATPase family protein, putative, expressed |
| TAIR PP10 | AT2G39730 @ ARAPORT AT2G39730.1 @ TAIR |
+3 | 0.0 | 728 | 362/479 (76%) | Symbols: RCA | rubisco activase | chr2:16570951-16573345 REVERSE LENGTH=474 |
| BRACH PP3 | Bradi4g09125.2.p | +3 | 0.0 | 882 | 432/486 (89%) | pacid=32783473 transcript=Bradi4g09125.2 locus=Bradi4g09125 ID=Bradi4g09125.2.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 (4868 bp)
>BART1_0-u27957.017 4868 150831_barley_pseudomolecules GTCACTCCAGTCGTGTTGGACGCTTGCTCCATGGCCATCTGTCCATGCACCTATATAAGA CGCCATGGCCAAGCTCCATCGATCGGCATCGCATCTGTACCTGCTAACCACTGCACCCCT CTCTTTTATCCATATCAGCTCCATCCATCACTGACGATCGATCTCAGTCCACCTGCATCT GTAGGTGTACTAGTAGTACGCCGGCCTAATCCAGCTGAGAGCTGATCGAGCTAGCTTGCA TATACCACTGCACGTACGCACATCAAATTAATTAGAAACTACTGTAATTAAGTTATCAGC AGCGAGAAGAGAACGATCGATCAACACCATGGCTTCTGCTTTCTCGTCCACCGTTGGAGC TCCGGCGTCGACCCCGACCATCTTCCTGGGCAAGAAGGTGAAGAACTACTACCATGGTGG CAACAAGATGAAGAGCAGGGTGGTGAGGGTCATGGCGGCCAAAAAGGAACTTGACCAGGG CAAGCAGACCGATGCGGACCGGTGGAAGGGTCTGGCCTACGACATCTCGGACGACCAGCA GGACATCACTCGGGGGAAAGGCATCGTGGACTCCCTGTTCCAGGCCCCCATGGGCGACGG CACCCACGAGGCCATCCTAAGCTCCTACGAGTACATCAGCCAGGGCCTGCGGAAGTACGA CTTCGACAACACCATGGACGGGCTGTACATCGCGCCGGCATTCATGGACAAGCTCATCGT CCACCTCGCCAAGAACTTCATGACACTCCCCAACATCAAGGTTCCTCTCATCCTGGGTAT CTGGGGAGGCAAGGGACAGGGCAAGTCGTTCCAGTGTGAGCTGGTGTTCGCCAAGATGGG CATCAACCCCATCATGATGAGCGCCGGTGAGCTGGAGAGCGGCAACGCCGGCGAGCCGGC CAAGCTGATCCGGCAGAGGTACCGCGAGGCGGCCGACATTATCAACAAGGGCAAGATGTG CTGCCTCTTCATCAACGACCTGGACGCCGGCGCGGGCCGGATGGGCGGGACGACGCAGTA CACGGTGAACAACCAGATGGTGAACGCCACCCTGATGAACATCGCGGACGCGCCCACCAA CGTGCAGCTCCCGGGGATGTACAACAAGGAGGAGAACCCCCGCGTGCCCATCATCGTCAC CGGCAACGACTTCTCGACGCTGTACGCTCCCCTGATCCGTGACGGGCGCATGGAGAAGTT CTACTGGGCGCCCACCCGCGAGGACCGCATCGGCGTGTGCAAGGGCATCTTCCGCACCGA CAACGTCCCGGACGAGGCCGTGGTGAGGCTGGTGGACACCTTCCCGGGGCAGTCCATCGA CTTCTTCGGCGCGCTGCGGGCACGGGTGTACGACGACGAGGTGCGCAAGTGGGTCGGCGA GATCGGCGTGGAGAACATCTCCAAGCGCCTCGTCAACTCCAGGGAGGGGCCGCCCACGTT CGACCAGCCCAAGATGACCATAGAGAAGCTCATGGAGTACGGCCACATGCTGGTCCAGGA GCAGGAGAACGTCAAGCGTGTGCAGCTCGCCGACAAGTACCTCAGCGAGGCGGCGCTCGG CCAAGCCAACGACGACGCCATGAAGACCGGTGCCTTCTACGGCAAGTAGAAGGTCCTACT CTACTTAAGATGCATGCATGCACTATATATATGTTGGACTATTTTGGACCCGAAATCCAC TCAAACTTTTTGATTCATCGCCGCACAGGTAACCCAATTGTAAGTCTCTTCTTGAAAGAG AAAGGAATTGTATATGTTCTTAAATCGTCATTTTCCGCTTAATCATTTCTCCAATGGATG CAAGCTAGGGTCCCAAGTCCCAACAACCTATATATCTCTTGATATTAGCACTTGTCGGAA GATTAGCACATATGTGGAAATCATCTGAAGCTTGTTGATTAGGTACGAGTACTGTGGATG TGGGGGGTCATGACTCATCACATACATACATATTTTCCCTTTGACGGATTACGGAAACCC CAATTTGCACCACAAAGTTGATTAACAAGGACAACATCACTAGAAGGTGTATTGGACAAA GATTGTGCGAGCCAAACGGCTCGCATTCATCGTAATGATCAATTAATGGTCTGTACTAGA CCCAAACAATGAGAATACCAGCAGGGAACTTGAGCTAGGCAACACGAATTACATTTACAT GAAAACATTAGACACGTTCTATAATCTTTTCATCAAAGCAAAACTGCATGGCTACCTTTT CTCTTAATACGCTTCATTTTTTTTTACCGAAGTGGCAATATTTATTGGAGTAGACAAAAG TACAAACCCATGTGCTTGATGTCAACCAGGACTTGATTTGTGTGGTGCCAAATGACATCC CTAGCTTGATGGTTATCAACAAACCAGTATATGTATGGCAGCAACAAATTTGTGGTACTT GGAACTAGAATACAATCTTGGGTGCCTCATCCAACAAGCAACGAGAGACCCTTTTTTTGT GGTTATGCAATGACATGGCTTGGCTAATAAACAAGATAGTATATACGGGCGACCGAGTGA AAGGAAAAAATGAAAGGCACGGAAGAAATGGGAGATGATTTGAGCATGAATGGTTAGATT CTGTGGCCGTGGAAGGCCATGGAATTGATGGCCAGCAGACGTATCTGCAGCTGCAGCTGC AGCGTTTGGTCTTGACGGTCCAAGTCATCCAACCGGCCGGCCAAGACGCTCAGAACCCAA TCTCCAGCGTGTGGCCTCTGGGGGATCGGGAGGCTGATCCACAAGCAGGGGTGTGTGTAT GCCGCCTCCTCCTCCAAGCTCCCCACAGCAGAGCAGCAATATGCCAATCCACGTGTATTT AAGGCGTCACATAGCTCGGCCTCTATACTTTGAGCAGCAGCAGTCATTCATCACTGATCA CCAGCACAGCCGCGCGCATCCACCGTTGCTAGCAAGGTCGACCAAGCAGCACAGAGATGG CTGCTGCCTTCTCCTCCACCGTCGGGGCTCCGGCTTCTACGCCGACCAACTTCCTCGGGA AGAAGCTCAAGAAGCAGGTGACCTCGGCCGTGAACTACCATGGCAAGAGCTCCAAGGCCA ACAGGTTCACAGTCATGGCAGCGGAGAACATCGACGAGAAGAGGAACACCGACAAGTGGA AGGGTCTTGCGTACGATATCTCCGACGACCAGCAGGACATCACCAGAGGGAAGGGCATCG TGGACTCGCTCTTCCAGGCGCCCACGGGCGACGGCACCCACGAGGCCGTCCTCAGCTCCT ACGAGTACGTCAGCCAGGGCCTGCGGAAGTACGACTTCGACAACACCATGGGAGGCTTCT ACATCGCTCCTGCTTTCATGGACAAGCTTGTTGTCCATCTCTCCAAAAACTTCATGACCC TGCCCAACATCAAGAAGCAGCAATAAAATGAATCATTCTGATTCTGAAACTGACCTTGAA TCGAAATTCAGATCCCACTCATCTTGGGTATCTGGGGAGGCAAGGGTCAAGGAAAATCAT TCCAGTGTGAGCTTGTGTTCGCCAAGATGGGCATCAACCCCATCATGATGAGTGCCGGAG AGCTGGAGAGTGGGAACGCTGGAGAGCCAGCCAAGCTCATCAGGCAGCGGTACCGTGAGG CTGCAGACATGATCAAGAAGGGTAAGATGTGCTGCCTCTTCATCAACGATCTTGACGCTG GTGCGGGTAGGATGGGCGGAACCACGCAGTACACCGTCAACAACCAGATGGTGAACGCCA CCCTGATGAACATCGCCGATGCCCCCACCAACGTGCAGCTCCCTGGCATGTACAACAAGG AGGAGAACCCCCGTGTGCCCATCGTCGTCACCGGTAACGATTTCTCGACGCTCTACGCTC CTCTGATCCGTGATGGTCGTATGGAGAAGTTCTACTGGGCTCCCACCCGTGACGACCGTA TCGGTGTCTGCAAGGGTATCTTCCAGACCGACAATGTCAGTGACGAGTCTGTCGTCAAGA TCGTCGACACCTTCCCAGGACAATCCATTGACTTTTTCGGTGCTCTGCGTGCTCGGGTGT ACGACGATGAGGTGCGCAAGTGGGTCGGCTCTACCGGAATCGAGAACATTGGCAAGAGGC TGGTGAACTCGCGGGACGGGCCCGTGACCTTCGAGCAGCCAAAGATGACAGTCGAGAAGC TGCTAGAGTACGGGCACATGCTCGTCCAGGAGCAGGACAATGTCAAGCGTGTGCAGCTTG CTGACACCTACATGAGCCAGGCAGCTCTGGGTGATGCTAACCAGGATGCGATGAAGACTG GTTCCTTCTACGGTAAAGGAGCACAGCAAGGTACTTTGCCCGTGCCGGAAGGTTGCACCG ACCAAAATGCCAAGAACTACGACCCAACGGCAAGGAGCGACGACGGCAGCTGCCTTTACA CCTTTTAAGCATGCCACTTTTAATATCTGATGTTTTACCTACCTAAGTCCGCATCGCATC CAAGCGATTGCTGGGCATGTTTTGTTAATATATCTCTAAATATATTGAGTATACCCATTT GGCAAAGACCAATACACCTACTTATCATTTGTCACTCTCAGTATTCATTCCTTCAGTGGA GACTCCTTCTGCTTTGTTGCAAACAGAACAAGAAAGTATTAATTTGAGCTTCAGCTTATT AATTATTATTGCACAAACGCATGGAAACTGAGAGTCAATTGCGATCATGCGATACATACA GCGTGTAATTTTAGCCCTGATGTTCCAACGTCCAAATTAGATCCCCAAAACTAAACGTCA TTTAAGCTTAGAAAGACAAACAGAAAGGAGCAGTTGTTTCAAATGATTGCTGTGGAGAAC TACATCCTTAATAAGCAGCTGCATCATGATGTGGTTCCCTAAGAGCATCTCCAGCCGTTC GATCTTCC
Protein Sequence (426 aa)
>BART1_0-u27957.017 426 150831_barley_pseudomolecules MASAFSSTVGAPASTPTIFLGKKVKNYYHGGNKMKSRVVRVMAAKKELDQGKQTDADRWK GLAYDISDDQQDITRGKGIVDSLFQAPMGDGTHEAILSSYEYISQGLRKYDFDNTMDGLY IAPAFMDKLIVHLAKNFMTLPNIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAG ELESGNAGEPAKLIRQRYREAADIINKGKMCCLFINDLDAGAGRMGGTTQYTVNNQMVNA TLMNIADAPTNVQLPGMYNKEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDR IGVCKGIFRTDNVPDEAVVRLVDTFPGQSIDFFGALRARVYDDEVRKWVGEIGVENISKR LVNSREGPPTFDQPKMTIEKLMEYGHMLVQEQENVKRVQLADKYLSEAALGQANDDAMKT GAFYGK