- Transcript BART1_0-u32165.004
- Transcript IDBART1_0-u32165.004
- Gene IDBART1_0-u32165
Barley RTD
Exon Structure of BART1_0-u32165.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 543119 | 542768 | + |
| chr5H | 2 | 543353 | 543268 | + |
| chr5H | 3 | 544004 | 543939 | + |
| chr5H | 4 | 544288 | 544091 | + |
| chr5H | 5 | 544850 | 544680 | + |
| chr5H | 6 | 545100 | 544945 | + |
| chr5H | 7 | 545338 | 545192 | + |
| chr5H | 8 | 545574 | 545503 | + |
| chr5H | 9 | 546156 | 545683 | + |
| chr5H | 10 | 546441 | 546260 | + |
| chr5H | 11 | 547193 | 546574 | + |
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 | 23.2298 | 19.2087 | 15.274 |
| morex | ETI | 9.42752 | 9.25153 | 8.95174 |
| morex | LEA | 13.4901 | 2.15719 | 2.68112 |
| morex | EPI | 4.3653 | 7.20461 | 4.76783 |
| morex | ROO | 4.69188 | 10.1693 | 5.56653 |
| morex | ROO2 | 22.7012 | 20.4811 | 23.4711 |
| morex | NOD | 29.1466 | 49.4825 | 26.8213 |
| morex | RAC | 44.2837 | 53.8999 | 57.2878 |
| morex | INF1 | 21.9861 | 20.6615 | 22.5614 |
| morex | INF2 | 30.5989 | 32.3689 | 32.3406 |
| morex | CAR5 | 36.3291 | 31.5443 | 32.6569 |
| morex | CAR15 | 6.41605 | 5.89376 | 6.0251 |
| morex | LEM | 12.8153 | 8.41129 | 14.0961 |
| morex | LOD | 48.892 | 53.9319 | 51.8219 |
| morex | PAL | 26.3165 | 25.0562 | 29.5349 |
| morex | SEN | 3.23576 | 6.29567 | 5.94755 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os12g44340.1 | +1 | 0.0 | 856 | 513/581 (88%) | protein|ATMAP70 protein, putative, expressed |
| TAIR PP10 | AT1G24764 @ ARAPORT AT1G24764.1 @ TAIR |
+1 | 0.0 | 638 | 412/584 (71%) | Symbols: ATMAP70-2, MAP70-2 | microtubule-associated proteins 70-2 | chr1:8760001-8763256 REVERSE LENGTH=634 |
| BRACH PP3 | Bradi4g00250.1.p | +1 | 0.0 | 887 | 534/583 (92%) | pacid=32788741 transcript=Bradi4g00250.1 locus=Bradi4g00250 ID=Bradi4g00250.1.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 (2524 bp)
>BART1_0-u32165.004 2524 150831_barley_pseudomolecules GGGCCTGCAAATGAATGAAATGACCATCCTCTCCTCTCCTCTCCTCTCCCACACACACAC ACTGTCATTCATGTGACCTGACCGCCATTAACACACTCTCTCCGACCGCCCCCCACAAGC ACAGCGCAGGCGCAGGCGCATTGGCCGGCGTGCTTGCGATCGGGATTGCCGGCGGCGGGG GCCATGGCCGATCCGTACGGCGACGGCCGGGCGCTGAGGAACCATCAGCAGGCGCCGGCA CAGCAGCGGCCGAGGCTGAAGCCGGCGCTGGAGATGGAGGACCTCATCAGCCTGCTCCAC GGCTCCGATCCCGTCCGCGTCGAGCTCACCCGCCTCGAGAACGACCTCCACTATAAGGAG AAGGAGCTGGGCGACGCGCAGGCGGAGATCAAGGCCCTGCGCCTCTCCGAGCGGGCCCGC GAGAAGGCCGTCGAGGATCTTACCGAAGAACTGGCAAAGGTGGATGGGAAGCTCAAGCTC ACCGAGTCTCTCCTGGAAAGCAAACTGTTGATGGCACGCGGCATTTTGCAGAACCTTGAA GCGAAGAAGATCAACGACGAGAAGAAAGCAGCGCTTGCCGCCCAGTTTGCAGCGGAGGCT ACGCTGCGAAGGGTTCATGCCGCGCAGAAGGACGATGACATGCCTCCCATCGAGGCCATC CTCGCGCCGCTGGAGGCCGAGCTGAAACTAGCCCGTCAAGAGATTGCAAAATTACAAGAT GACAACAGGGCATTAGACCGTCTTACAAAGTCTAAGGAAGCAGCTCTGCTGGAAGCAGAA AGGACCGTTCAGATAGCACTAGCAAAAGCTTCCTTGGTGGATGATCTGCAAAATAAAAAC CAAGAATTGATGAAACAGATCGAGATATGTCAGGAAGAGAACAAAATCTTGGACAGAATG CACCGCCAGAAGGTTGCTGAGGTTGAAAAGCTTACTCAGACCGTCAGAGAGCTAGAAGAA GCTGTTCTTGCTGGCGGTGCAGCCGCAAATGCTGTGAGGGACTATCAGCGGAAAGTTCAG GAGATGAATGAGGAAATGAAAACTCTGGATCGTGAGCTTGCTCGTGCAAAGGTTTCAGCA AATAGGGTCGCGGTAGTGGTGGCAAATGAGTGGAAAGATGGCAATGATAAAGTAATGCCT GTTAAGCAATGGCTTGAAGAACGGAGGCTTCTGCAAGGAGAAATGCAGCAACTCCGTGAT AAACTTGCTATAGCAGAAAGGGCTGCAAGATCAGAAGCTCAACTGAAGGACAAGTTCCAG CTACGGCTTAAAGTGCTTGAGGAAGGATTGAGAATGTCGACATCTCGAACCAATGCAAGT GCCGCCCGCCGCCAGTCTATTGGTGGCGCTGAGAGTGCATCCAAGACCAATGGCTTTCTA TCGAAGCGGCCATCATTCCAGATGAGAACATCGGTATCTACCACCACGACTACGCTTGTG AACCATGCGAAGGGGGCATCCAAGTCTTTTGATGGAGGGTGTAGATCACTTGACCGTTAT AAGGGCCATGTAAATGGGGTTGGCATGAACGTATCAACCGACTCCAGCGAGGATAAGGAG TCAAACAACTCAGATGAGAAGCCTAGTGAATTTACATCTGTTGAGTCGGAGGACACGGTG TCAGGTATGCTGTATGATATGCTGCAAAAGGAGGTTGTTGCTCTAAGGAAGGCTTGTCAT GAAAAGGACCAAAGCTTGAAAGACAAGGACGACGCAGTCGAGATGTTGGCCAAGAAAGTC GACACTTTAACAAAGGCGATGGAGTCAGAGGCTAAGAAGATGAGACGGGATGTAGCTGCC ATGGAGAAGGAGGTGGTGGCTATGCGATTAGAGAAAGAGCAGGATACGAAAGCAAGAAGG TTCGGCAGTTCAAGCGCCTCTGCCTCACAGGTGCCACCTGGAAGGACTCTGCCTCGGAGC NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTTCAGCACGC AACATGTGATGCTGCTGATATGAAGCATTAAAAAGACCTTGGAGCACCTCCTGTGTAGTT AGTTGAATGATGGCATCCAGGGACCCTCTGCTGACTTGTGTGTAGAAAAAACAAGAAGGC ATTGCATCTTGGTGCCCAGAAGTGTCGAGCCTGAGCCTGAGCCTGATCGATCGTGCCTGC TACATCTCGTGGTCGCGGAAATCAATCAATCAGCGACTCGGGTCGAGTGAAGTTAGTGTC GTTGATGAGATTTGGCGGTGTTTTTATTCATTTCCTGTCGTGGAACCGAAAACACTTTGT TGTATAGGTATGGTGTGGCCTTGCAATATTTTTTGTTTGTAATCCTACCTACTCCCCAAG AGCTTGTGTGGTGTTTTATGCTAGCCAAGTTGTTTGTGAATAATAACATGATGATGATGA TGATGATAGTGCAGTTAAGCTGGTGTGTCTTTCTCTGGAAGGTGAATTCCAATCTGTCTA GTGTAAAACTGCAGTCTCTGCAACGCACGGACATATTTCCTAGTGAAATATAAGAGCTTT TAGA
Protein Sequence (601 aa)
>BART1_0-u32165.004 601 150831_barley_pseudomolecules MADPYGDGRALRNHQQAPAQQRPRLKPALEMEDLISLLHGSDPVRVELTRLENDLHYKEK ELGDAQAEIKALRLSERAREKAVEDLTEELAKVDGKLKLTESLLESKLLMARGILQNLEA KKINDEKKAALAAQFAAEATLRRVHAAQKDDDMPPIEAILAPLEAELKLARQEIAKLQDD NRALDRLTKSKEAALLEAERTVQIALAKASLVDDLQNKNQELMKQIEICQEENKILDRMH RQKVAEVEKLTQTVRELEEAVLAGGAAANAVRDYQRKVQEMNEEMKTLDRELARAKVSAN RVAVVVANEWKDGNDKVMPVKQWLEERRLLQGEMQQLRDKLAIAERAARSEAQLKDKFQL RLKVLEEGLRMSTSRTNASAARRQSIGGAESASKTNGFLSKRPSFQMRTSVSTTTTTLVN HAKGASKSFDGGCRSLDRYKGHVNGVGMNVSTDSSEDKESNNSDEKPSEFTSVESEDTVS GMLYDMLQKEVVALRKACHEKDQSLKDKDDAVEMLAKKVDTLTKAMESEAKKMRRDVAAM EKEVVAMRLEKEQDTKARRFGSSSASASQVPPGRTLPRSXXXXXXXXXXXXXXXXXSARN M