- Transcript BART1_0-u11397.004
- Transcript IDBART1_0-u11397.004
- Gene IDBART1_0-u11397
Barley RTD
Exon Structure of BART1_0-u11397.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 405594558 | 405593720 | + |
| chr2H | 2 | 405594715 | 405594650 | + |
| chr2H | 3 | 405594910 | 405594845 | + |
| chr2H | 4 | 405595321 | 405595025 | + |
| chr2H | 5 | 405595560 | 405595400 | + |
| chr2H | 6 | 405596685 | 405596579 | + |
| chr2H | 7 | 405598197 | 405596793 | + |
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 | 0.470936 | 1.85921 | 0.0000672177 |
| morex | ETI | 1.42802 | 2.90774 | 0.000690003 |
| morex | LEA | 2.11152 | 5.6259 | 10.431 |
| morex | EPI | 2.68586 | 0.0000000168417 | 1.09363 |
| morex | ROO | 0.581487 | 0 | 0 |
| morex | ROO2 | 0 | 0.387941 | 0.195293 |
| morex | NOD | 0.887935 | 0.540837 | 0.000000536653 |
| morex | RAC | 0.409561 | 0 | 0 |
| morex | INF1 | 0.544875 | 0.875072 | 0.434712 |
| morex | INF2 | 0.69981 | 0.944707 | 1.32526 |
| morex | CAR5 | 1.47168 | 2.00091 | 0.363889 |
| morex | CAR15 | 1.93572 | 3.25577 | 2.1955 |
| morex | LEM | 0 | 0.00424719 | 0.000000772716 |
| morex | LOD | 0.000000474063 | 0.296946 | 0.198363 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 3.41794 | 6.44452 | 3.76718 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g05010.1 | +3 | 1e-76 | 258 | 150/239 (63%) | protein|helix-loop-helix DNA-binding domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g58230.1.p | +3 | 8e-136 | 413 | 251/375 (67%) | pacid=32794195 transcript=Bradi1g58230.1 locus=Bradi1g58230 ID=Bradi1g58230.1.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 (2941 bp)
>BART1_0-u11397.004 2941 150831_barley_pseudomolecules TTCACAGTCACACTCACTCACAGGGCGGACAGCGATGTCAACGGATCCTCCCCCTCCATA CGAATGCCGCACAACTCTTCTCTCCTCTTCTCTTCTCTCGTCCTTTTATTATTCCCGAGA AAATCGAACCCAGCTAGACAGTCCACAGCTCTGGCACACAGCTTCGCTCTCCGCCGGTTT CTGCTCAAGTGGAGAGGCCCGTCAGCTCGATCGGTTCCAGGATCATGGACGACGGCGCAA CACCGCCGCCCAACCACAAGAGGCACCTCCCGTAATTTACGAGCTTCTCTCACCAATTGA TTCGTTTCTTGTGTCTGTGCTTCTTGTTCCTTGTGAGAGCCTTCTCGTGGCGCAGACTGC GGGAGGCGGGCGGCGACCTCGTGGAGCTGCTGTGGCAGAACGGAGCCATCGTAGCGCAGG CGCAGGCGCAGACGCCGCACCGCCGGTGTTCCCAGAGCGGCGCGGCGAGCGGCGTCACCG CGGAGGACGCGACCGCGTGGTTGATCCCGGACGGCGGCGGCGGCAGGGACCTGTACTCGC ACCTCTGGCACGGCGTCGCCGACGGGGATGCGGGCGCGCTCGTGGCGGGGAGCGGCGGCG CCGGGACGAGCTTCTGCGGGAGCAACGCGGTGACGGCGCCGGCGCTGCTGCCATCGCCGG GCTCGTCCGCAGCGGGAGGCCAAGCGCTACTGTTCAAGAGGGGGAGGGACCAACTGGATA GCCGCCGAGAGGACGAACTGGATACCGACGACTGTGAGGCCGTCAATGAGACCCGGCCGC AGCGGCCGGCAGCGAAGCGCAGGACTCGTGCTGCCGAGGTCCATAACCAATCAGAGCGGA GAAGAAGGGATCGGATCAACGAAAAGATGAAAGCATTGCAAGAACTCGTACCCCATTGCA ACAAGAGCGACAAGGCGTCCATTCTAGACGAAGCAATCGAGTACTTGAAGTCTCTGCAAC TGCAAGTTCAGATCATGTGGATGACTACTGGGATGACGCCCATGATGTACCCTGGTGCTC ACCAACTCATGTCGCCGATGGCCGTGGGCTTGAACTCAGCGTGCATTCCCACGGCGCAGA GCCTTAGCCAGCTGCAAAAAAGGGTAGCACCGTTTATGAACAATCATCTCCCCGATCAAA TGCCTCAGGTCCAATCTCCAGCTATCGATTCCCTCGATGTGGCAAACCAGATGCAAAACA ATGGTGTCTGTGGTGAGCCAAGAAACCCTTTCCTGCATCCAGACGACACGCTAACAGCGG CATCTCAGCTTCCGGGTATGTTGCCCTATGCATCTCAAAAGGCACAACAAAACCAGAATC ATCAGTTACTGCCTAGCATAGACATGCCAGCTTCAGGACCCTGCCCGCCATCTTTTGCTG ACGGAACGGGAAAATAAGGCCAGGCAGTTTCAAGCAAGATGATTTACTGATTGGCCATCT ATCTATATGATAATATAAGATGCCAAGGAAACTCAGACATGTCCTTCACATCCCTAACGA ACGGCCAGAATATCACCTGGCATATATAACTCGCAGGGGGGTTGGATACAGGAGGTCAGA GCAAACTAGTCATAGAAGAGAAGAGATATGGTACCAAGACACTCTGTGCTGTAAGGCCAG GGGCAGATCATGCAACATTGAGCCTTGGTGGCACCACTAAGCAACCAACACGTATGGGCC CGAGATCATGCGGAATTGCGGATAGCAGATACTATTCTTATCCGAAGAATAGTCTTGAGC ACCACCTTTCTATTTATGGAAGGATTTGGTCCATGGGAGATGAACTTGGGGCTTTGACAG GGACAACAAAAGATGATTGTGCCGATATGCTGCAGATCTGGAGATGACATTGTTGGAGCC AGGATCTGCACAATGACACAACTTGTGCACTTCTGCTCGTCTTTCCACCGATGTAACTCC ACTCCACTGGTGAGTCCTAATGGGACTGTCCTGTTGACCCGCGGTCGAGCTATCGATATT CGAATGGACGGCTGAAACAAGGGTAGGCAGAAGAAACTTGTGCTTTTCGGACACAATTGT AGATCAGGTTTGCATATGCCTTTCAGAAATTCAGACAAGTGGTACATGAAGATCATTCTC ATTCGGCCATCAGGATCGCGAGATTATCGCCTTACCCTTAACCCTGGAAAGATTGTACCG CATGTGGTGATGTCCTGTTACAAGTTAATCAGGACTGTGATGGGCATCATCCGTTTCGTC ACAGGGTAATTAGTCTCTGAAAATATCAATGATGCTGCATCTTTTGTTGTGTTATACTCC AATTGTGAGTCAGCTTCAGTCGCCGTCAGGGGAGACTGGGACTTTGCTTCGCATTTACAC GTCCAGATTTGGTTGTCATGCTCGTATCATAGCGATTGATGTAGATGCTTGGCAATTTGG AGGACAGATATTCATACCATGAAAAAAAAGAGGACAGATATTCATTCTTTGCGTCTTGCT CTTGCTTCTATATATATCTAGGAAACCAGAACTAGTCAAAATTTCAAACATGTGAAAAGA TTATTGGCTTCGCCCGGGTTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAAC CAACTACACCACGAAACCTTTAGTGCTTTGTCCACATATGGTAAAGTTCTCTTCTAACTA CGCTCAGCTGACGAACCAAACGCAAGAAGAAAGCAAAGATAAAGTGGAAGGAAAAGGAGC AAGGAGGAGAGTAGGCGTTCTGAACACACCGACCTCTGATCCTTGCAATCTCGCTGATGA CTTTTACGCAGGGACGCAAGATTCCTGGCGAACGCAGGCCGCTGATCCTTACAATGTCGT TGATGACTTTTACGCAGAGATCCAAACCCAAAAGTATTCAGAAATACTATCTGGTGAATG TTCGCTGGGCGGACAACCCCGGCGAACGCTCTCTCCCCCGTTGCATGGACCTTGGCGCAG G
Protein Sequence (176 aa)
>BART1_0-u11397.004 176 150831_barley_pseudomolecules MKALQELVPHCNKSDKASILDEAIEYLKSLQLQVQIMWMTTGMTPMMYPGAHQLMSPMAV GLNSACIPTAQSLSQLQKRVAPFMNNHLPDQMPQVQSPAIDSLDVANQMQNNGVCGEPRN PFLHPDDTLTAASQLPGMLPYASQKAQQNQNHQLLPSIDMPASGPCPPSFADGTGK