- Transcript BART1_0-u27957.010
- Transcript IDBART1_0-u27957.010
- Gene IDBART1_0-u27957
Barley RTD
Exon Structure of BART1_0-u27957.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 166877905 | 166877285 | - |
| chr4H | 2 | 166878412 | 166878081 | - |
| chr4H | 3 | 166878985 | 166878513 | - |
| chr4H | 4 | 166879322 | 166879237 | - |
| chr4H | 5 | 166880213 | 166879812 | - |
| chr4H | 6 | 166880997 | 166880335 | - |
| chr4H | 7 | 166882942 | 166881695 | - |
| chr4H | 8 | 166885518 | 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 | 0.0244092 | 0.275184 | 0.013347 |
| morex | ETI | 42.1131 | 310.555 | 635.758 |
| morex | LEA | 50.0702 | 54.58 | 12.7417 |
| morex | EPI | 10.927 | 3.93159 | 17.5124 |
| morex | ROO | 1.4708 | 0.344464 | 0.369477 |
| morex | ROO2 | 0.0488826 | 0.259365 | 0.250085 |
| morex | NOD | 0.475804 | 0.398736 | 1.24122 |
| morex | RAC | 0.557779 | 1.49602 | 1.06439 |
| morex | INF1 | 0.0345963 | 0.0394566 | 0.0431886 |
| morex | INF2 | 0.0714321 | 0.174969 | 0.00191842 |
| morex | CAR5 | 50.111 | 71.328 | 75.583 |
| morex | CAR15 | 17.3005 | 21.1184 | 18.0178 |
| morex | LEM | 8.26814 | 5.69345 | 2.55312 |
| morex | LOD | 0 | 0.0447639 | 0.102576 |
| morex | PAL | 0.241316 | 1.04296 | 0.667229 |
| morex | SEN | 227.478 | 38.7533 | 34.2411 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g47970.1 | +1 | 0.0 | 786 | 375/418 (90%) | protein|AAA-type ATPase family protein, putative, expressed |
| TAIR PP10 | AT2G39730 @ ARAPORT AT2G39730.3 @ TAIR |
+1 | 0.0 | 706 | 341/423 (81%) | Symbols: RCA | rubisco activase | chr2:16571174-16573345 REVERSE LENGTH=441 |
| BRACH PP3 | Bradi4g09125.1.p | +1 | 0.0 | 837 | 398/430 (93%) | pacid=32783475 transcript=Bradi4g09125.1 locus=Bradi4g09125 ID=Bradi4g09125.1.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 (4350 bp)
>BART1_0-u27957.010 4350 150831_barley_pseudomolecules TGGGAGATGCCCAACCCTATCCACACAATTAACATCTCATCATCCACTCCACTTGGCTCG CCTCACTAGCTACTTATCGCAGCCGGCCTGATAATCACAGCTTATGTGGCTTGACTGCGT GATTACGCAGGGACGCTCTAGAATAGTCTCTCACGCTCTAGGTCACTCCAGTCGTGTTGG ACGCTTGCTCCATGGCCATCTGTCCATGCACCTATATAAGACGCCATGGCCAAGCTCCAT CGATCGGCATCGCATCTGTACCTGCTAACCACTGCACCCCTCTCTTTTATCCATATCAGC TCCATCCATCACTGACGATCGATCTCAGTCCACCTGCATCTGTAGGTGTACTAGTAGTAC GCCGGCCTAATCCAGCTGAGAGCTGATCGAGCTAGCTTGCATATACCACTGCACGTACGC ACATCAAATTAATTAGAAACTACTGTAATTAAGTTATCAGCAGCGAGAAGAGAACGATCG ATCAACACCATGGCTTCTGCTTTCTCGTCCACCGTTGGAGCTCCGGCGTCGACCCCGACC ATCTTCCTGGGCAAGAAGGTGAAGAACTACTACCATGGTGGCAACAAGATGAAGAGCAGG GTGGTGAGGGTCATGGCGGCCAAAAAGGAACTTGACCAGGGCAAGCAGACCGATGCGGAC CGGTGGAAGGGTCTGGCCTACGACATCTCGGACGACCAGCAGGACATCACTCGGGGGAAA GGCATCGTGGACTCCCTGTTCCAGGCCCCCATGGGCGACGGCACCCACGAGGCCATCCTA AGCTCCTACGAGTACATCAGCCAGGGCCTGCGGAAGTACGACTTCGACAACACCATGGAC GGGCTGTACATCGCGCCGGCATTCATGGACAAGCTCATCGTCCACCTCGCCAAGAACTTC ATGACACTCCCCAACATCAAGGTTCCTCTCATCCTGGGTATCTGGGGAGGCAAGGGACAG GGCAAGTCGTTCCAGTGTGAGCTGGTGTTCGCCAAGATGGGCATCAACCCCATCATGATG AGCGCCGGTGAGCTGGAGAGCGGCAACGCCGGCGAGCCGGCCAAGCTGATCCGGCAGAGG TACCGCGAGGCGGCCGACATTATCAACAAGGGCAAGATGTGCTGCCTCTTCATCAACGAC CTGGACGCCGGCGCGGGCCGGATGGGCGGGACGACGCAGTACACGGTGAACAACCAGATG GTGAACGCCACCCTGATGAACATCGCGGACGCGCCCACCAACGTGCAGCTCCCGGGGATG TACAACAAGGAGGAGAACCCCCGCGTGCCCATCATCGTCACCGGCAACGACTTCTCGACG CTGTACGCTCCCCTGATCCGTGACGGGCGCATGGAGAAGTTCTACTGGGCGCCCACCCGC GAGGACCGCATCGGCGTGTGCAAGGGCATCTTCCGCACCGACAACGTCCCGGACGAGGCC GTGGTGAGGCTGGTGGACACCTTCCCGGGGCAGTCCATCGACTTCTTCGGCGCGCTGCGG GCACGGGTGTACGACGACGAGGTGCGCAAGTGGGTCGGCGAGATCGGCGTGGAGAACATC TCCAAGCGCCTCGTCAACTCCAGGGAGGGGCCGCCCACGTTCGACCAGCCCAAGATGACC ATAGAGAAGCTCATGGAGTACGGCCACATGCTGGTCCAGGAGCAGGAGAACGTCAAGCGT GTGCAGCTCGCCGACAAGTACCTCAGCGAGGCGGCGCTCGGCCAAGCCAACGACGACGCC ATGAAGACCGGTGCCTTCTACGGCAAGTAGAAGGACTTGATTTGTGTGGTGCCAAATGAC ATCCCTAGCTTGATGGTTATCAACAAACCAGTATATGTATGGCAGCAACAAATTTGTGGT ACTTGGAACTAGAATACAATCTTGGGTGCCTCATCCAACAAGCAACGAGAGACCCTTTTT TTGTGGTTATGCAATGACATGGCTTGGCTAATAAACAAGATAGTATATACGGGCGACCGA GTGAAAGGAAAAAATGAAAGGCACGGAAGAAATGGGAGATGATTTGAGCATGAATGGTTA GATTCTGTGGCCGTGGAAGGCCATGGAATTGATGGCCAGCAGACGTATCTGCAGCTGCAG CTGCAGCGTTTGGTCTTGACGGTCCAAGTCATCCAACCGGCCGGCCAAGACGCTCAGAAC CCAATCTCCAGCGTGTGGCCTCTGGGGGATCGGGAGGCTGATCCACAAGCAGGGGTGTGT GTATGCCGCCTCCTCCTCCAAGCTCCCCACAGCAGAGCAGCAATATGCCAATCCACGTGT ATTTAAGGCGTCACATAGCTCGGCCTCTATACTTTGAGCAGCAGCAGTCATTCATCACTG ATCACCAGCACAGCCGCGCGCATCCACCGTTGCTAGCAAGGTCGACCAAGCAGCACAGAG ATGGCTGCTGCCTTCTCCTCCACCGTCGGGGCTCCGGCTTCTACGCCGACCAACTTCCTC GGGAAGAAGCTCAAGAAGCAGGTGACCTCGGCCGTGAACTACCATGGCAAGAGCTCCAAG GCCAACAGGTTCACAGTCATGGCAGCGGAGAACATCGACGAGAAGAGGAACACCGACAAG TGGAAGGGTCTTGCGTACGATATCTCCGACGACCAGCAGGACATCACCAGAGGGAAGGGC ATCGTGGACTCGCTCTTCCAGGCGCCCACGGGCGACGGCACCCACGAGGCCGTCCTCAGC TCCTACGAGTACGTCAGCCAGGGCCTGCGGAAGTACGACTTCGACAACACCATGGGAGGC TTCTACATCGCTCCTGCTTTCATGGACAAGCTTGTTGTCCATCTCTCCAAAAACTTCATG ACCCTGCCCAACATCAAGATCCCACTCATCTTGGGTATCTGGGGAGGCAAGGGTCAAGGA AAATCATTCCAGTGTGAGCTTGTGTTCGCCAAGATGGGCATCAACCCCATCATGATGAGT GCCGGAGAGCTGGAGAGTGGGAACGCTGGAGAGCCAGCCAAGCTCATCAGGCAGCGGTAC CGTGAGGCTGCAGACATGATCAAGAAGGGTAAGATGTGCTGCCTCTTCATCAACGATCTT GACGCTGGTGCGGGTAGGATGGGCGGAACCACGCAGTACACCGTCAACAACCAGATGGTG AACGCCACCCTGATGAACATCGCCGATGCCCCCACCAACGTGCAGCTCCCTGGCATGTAC AACAAGGAGGAGAACCCCCGTGTGCCCATCGTCGTCACCGGTAACGATTTCTCGACGCTC TACGCTCCTCTGATCCGTGATGGTCGTATGGAGAAGTTCTACTGGGCTCCCACCCGTGAC GACCGTATCGGTGTCTGCAAGGGTATCTTCCAGACCGACAATGTCAGTGACGAGTCTGTC GTCAAGATCGTCGACACCTTCCCAGGACAATCCATTGACTTTTTCGGTGCTCTGCGTGCT CGGGTGTACGACGATGAGGTGCGCAAGTGGGTCGGCTCTACCGGAATCGAGAACATTGGC AAGAGGCTGGTGAACTCGCGGGACGGGCCCGTGACCTTCGAGCAGCCAAAGATGACAGTC GAGAAGCTGCTAGAGTACGGGCACATGCTCGTCCAGGAGCAGGACAATGTCAAGCGTGTG CAGCTTGCTGACACCTACATGAGCCAGGCAGCTCTGGGTGATGCTAACCAGGATGCGATG AAGACTGGTTCCTTCTACGGTTAGAAAATTCTCCATACACACCCACCATCTCTTGCTGCA TAGGAGGAGGTAAAGGAGCACAGCAAGGTACTTTGCCCGTGCCGGAAGGTTGCACCGACC AAAATGCCAAGAACTACGACCCAACGGCAAGGAGCGACGACGGCAGCTGCCTTTACACCT TTTAAGCATGCCACTTTTAATATCTGATGTTTTACCTACCTAAGTCCGCATCGCATCCAA GCGATTGCTGGGCATGTTTTGTTAATATATCTCTAAATATATTGAGTATACCCATTTGGC AAAGACCAATACACCTACTTATCATTTGTCACTCTCAGTATTCATTCCTTCAGTGGAGAC TCCTTCTGCTTTGTTGCAAACAGAACAAGAAAGTATTAATTTGAGCTTCAGCTTATTAAT TATTATTGCACAAACGCATGGAAACTGAGAGTCAATTGCGATCATGCGATACATACAGCG TGTAATTTTAGCCCTGATGTTCCAACGTCCAAATTAGATCCCCAAAACTAAACGTCATTT AAGCTTAGAAAGACAAACAGAAAGGAGCAGTTGTTTCAAATGATTGCTGTGGAGAACTAC ATCCTTAATAAGCAGCTGCATCATGATGTGGTTCCCTAAGAGCATCTCCAGCCGTTCGAT CTTCCGGGGCGTAAAATAGCGCCTCCTGGA
Protein Sequence (427 aa)
>BART1_0-u27957.010 427 150831_barley_pseudomolecules MAAAFSSTVGAPASTPTNFLGKKLKKQVTSAVNYHGKSSKANRFTVMAAENIDEKRNTDK WKGLAYDISDDQQDITRGKGIVDSLFQAPTGDGTHEAVLSSYEYVSQGLRKYDFDNTMGG FYIAPAFMDKLVVHLSKNFMTLPNIKIPLILGIWGGKGQGKSFQCELVFAKMGINPIMMS AGELESGNAGEPAKLIRQRYREAADMIKKGKMCCLFINDLDAGAGRMGGTTQYTVNNQMV NATLMNIADAPTNVQLPGMYNKEENPRVPIVVTGNDFSTLYAPLIRDGRMEKFYWAPTRD DRIGVCKGIFQTDNVSDESVVKIVDTFPGQSIDFFGALRARVYDDEVRKWVGSTGIENIG KRLVNSRDGPVTFEQPKMTVEKLLEYGHMLVQEQDNVKRVQLADTYMSQAALGDANQDAM KTGSFYG