- Transcript BART1_0-u29392.003
- Transcript IDBART1_0-u29392.003
- Gene IDBART1_0-u29392
Barley RTD
Exon Structure of BART1_0-u29392.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 437920145 | 437919872 | + |
| chr4H | 2 | 437920383 | 437920288 | + |
| chr4H | 3 | 437921901 | 437921810 | + |
| chr4H | 4 | 437922289 | 437922155 | + |
| chr4H | 5 | 437922435 | 437922379 | + |
| chr4H | 6 | 437922588 | 437922516 | + |
| chr4H | 7 | 437923067 | 437922909 | + |
| chr4H | 8 | 437923504 | 437923355 | + |
| chr4H | 9 | 437923835 | 437923580 | + |
| chr4H | 10 | 437924043 | 437923928 | + |
| chr4H | 11 | 437924264 | 437924178 | + |
| chr4H | 12 | 437924432 | 437924344 | + |
| chr4H | 13 | 437924580 | 437924518 | + |
| chr4H | 14 | 437924741 | 437924685 | + |
| chr4H | 15 | 437924951 | 437924855 | + |
| chr4H | 16 | 437925576 | 437925033 | + |
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 | 4.06322 | 0.00000267849 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.717332 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.00000016515 | 0 | 0 |
| morex | NOD | 0 | 0.00444941 | 0 |
| morex | RAC | 12.0637 | 2.4776 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0.329186 |
| morex | LEM | 0.378081 | 0.000000117408 | 0.146524 |
| morex | LOD | 0.045372 | 0.701538 | 0.000000000638635 |
| morex | PAL | 1.51413 | 0.699812 | 0.00000000209212 |
| morex | SEN | 1.78106 | 0.00000000121056 | 0.000152192 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g19970.1 | +2 | 0.0 | 990 | 479/537 (89%) | protein|CAS1 domain-containing protein 1 precursor, putative, expressed |
| TAIR PP10 | AT5G46340 @ ARAPORT AT5G46340.1 @ TAIR |
+2 | 0.0 | 780 | 377/531 (71%) | Symbols: | O-acetyltransferase family protein | chr5:18796361-18799725 REVERSE LENGTH=540 |
| BRACH PP3 | Bradi1g64180.2.p | +2 | 0.0 | 1034 | 502/536 (94%) | pacid=32801052 transcript=Bradi1g64180.2 locus=Bradi1g64180 ID=Bradi1g64180.2.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 (2345 bp)
>BART1_0-u29392.003 2345 150831_barley_pseudomolecules TTGGAGATTATAATATTTTTTTTCTCCCGTTGCAACGCACGGGTCTTTTTGCTAGTAGCA CCTAGAGGTGATGCTCACCCATCTATTACACCTTGGAAGTTAATTTTTAGGTAGCCGGAG AAAAAAAAAGACGAGAAATCTTTCCCACCTAAATCTAACCTAACTCTTTCAGTTAGACTG TCACTTGCAAATCGCACCGACTGTGGGTCCCGTTGTCCATCGCCGGTGGCCCCGCATGCA GTGTCTGCGCGACTCTCCGTCCGTCGTATCACGCCGCCAAAGCTTGGCGGATGCTGTAGA AATGGCGGAGGCGCTCGCGTCCGCGGGTGGGCTCGCCATGGCGGCCTCGACCTCTTTCAC GCCCGGCCAGCTTTCTGCTTTTCTGGGATTTCTTTGGGTTCTTGCGGCCTGGGTGTATGC GGAGGTTCTCTTTCATAGGAAGAATGCTGCTTCACTTAAAACACACTCGGACATCAATTT ATCAGATATGGATAGTAGCTCAAACAAAGGAGAGGATCAAACAATGTTACTGGAGGAGGG TGGTCAAGTAGCTGGTGCAAAGCCAGTTTATGCTTCTTTCACATCACAGATGCTCAGACT TTTCTGTATGGACCAGACACTTCTTCTGGAGCATCGATTGACACTGAGGGCAATATCTGA GCTTGGAGGCCATCTACTTTACTTTTACATATGTGACCGCACAAATATATTCGGGGAATC TGGAAAGAATTACAGCCGAGATCTCTTCCTTTTCCTCTATTTTCTTCTTATCATCGTAGC AGCTATTACTTCCTTCAAGATCCACCAAGATAAGTCCACATTCACTGGAAAATCTATACT ATATTTGAATAGGCATCAGACAGAAGAATGGAAGGGTTGGATGCAGGTGCTATTCTTGAT GTACCACTACTTCAATGCTAAAGAGATCTACAATGCGATTCGTGTGTTCATTGCTGCATA TGTCTGGATGACTGGGTTTGGTAACTTCTCCTATTATTATGTGCGGAAGGATTTCAGTCT GGGACGATTTGCTCAGATGATGTGGCGCCTCAATTTCTTTGTGGCATTCTGTTGCATTGT CCTGAATAATGATTACACACTATATTATATTTGCCCTATGCACACTCTTTTCACCCTCAT GGTGTATGGTGCTCTTGGAATACTAAACAAGTACAATGAGATTAGATCAGTGATTGCTAT AAAATTTGTTGGGTGCTTCTTGGTAGTTATCTTGGTATGGGAAATCCCAGGTGTCTTTGA GATAGTCTGGAGCCCATTCACTTTTCTTCTAGGTTATGATGATCCTTCTAAACCAGATCT CCCTAGGTTGCATGAGTGGCACTTCCGATCTGGACTGGATCGCTACATATGGATTGTGGG GATGATATATGCCTATTACCATCCAACAGTTGAGAAGTGGATGGAAAAGCTTGAAGAAGC TGAAACAAGAACGAAGCTCTATATTAAGGCCTCTATAGTTACAGTTTCTATAACGGCTGG GTATTTGTGGTACGAGTACATCTACAAGATGGACAAGATTACCTACAATAAATACCATCC TTACACATCCTGGATCCCCATAACTGTTTACATCTGCCTGCGCAACTTCACTCAAGAATT CCGGGCGTGCTCTCTCACGCTATTTGCCTGGCTTGGAAAGATTACACTAGAAACATATAT ATCTCAGTTCCATATCTGGCTCAGATCAAAGGTGCCCAATGGGCAACCCAAGTGGCTGTT GACGATAATCCCAGATTACCCACTGCTTAACTTCATGCTCACGACTGCGCTATATGTTGC GGTTTCCCATAGGCTCTTCGAACTCACTAATACTTTGAAGATAGCATTTGTACCTCGTGA CAACAAGCACCTCTCGTACAATTTTGTTGCAGGGATTGCCATTTCAGTTGCACTCTACTC TGTATCATTTGCCTTAGTTGGCATAGCAGGATACTAGCAAATTTAGCCATTAGCTGTTAG TTCTAGTTATAGTCTAGGCTATCAACAAAGCTAGTTTTGATCGTCGGTGAGATAAAAGTC AATGGGCGAAGCATGATTGACAGCGCATAAACTGCTTCTCTTTCACCCTTGGCCTTGAGT CGGCGTGCACAAGTTTTAGTCTTGAATAGTGTAAAATGTACAATTTGCCACTATCATATC CTTGACATTGTTGGTTGTGAATGTAATTCTTGAGGTTGAGTAATACAAGAATTTATTTTA AAAAAGTATTGCTTGTATAGATGTTGAAATGCATACCGGAGTGTAACAGCCTGAGACCGA CGCTTCAGAAGATTCCCTTTTTATTCCAATTGTCGTCCTGTGATTATTTTTTTTCGCAAT CATCG
Protein Sequence (573 aa)
>BART1_0-u29392.003 573 150831_barley_pseudomolecules MQCLRDSPSVVSRRQSLADAVEMAEALASAGGLAMAASTSFTPGQLSAFLGFLWVLAAWV YAEVLFHRKNAASLKTHSDINLSDMDSSSNKGEDQTMLLEEGGQVAGAKPVYASFTSQML RLFCMDQTLLLEHRLTLRAISELGGHLLYFYICDRTNIFGESGKNYSRDLFLFLYFLLII VAAITSFKIHQDKSTFTGKSILYLNRHQTEEWKGWMQVLFLMYHYFNAKEIYNAIRVFIA AYVWMTGFGNFSYYYVRKDFSLGRFAQMMWRLNFFVAFCCIVLNNDYTLYYICPMHTLFT LMVYGALGILNKYNEIRSVIAIKFVGCFLVVILVWEIPGVFEIVWSPFTFLLGYDDPSKP DLPRLHEWHFRSGLDRYIWIVGMIYAYYHPTVEKWMEKLEEAETRTKLYIKASIVTVSIT AGYLWYEYIYKMDKITYNKYHPYTSWIPITVYICLRNFTQEFRACSLTLFAWLGKITLET YISQFHIWLRSKVPNGQPKWLLTIIPDYPLLNFMLTTALYVAVSHRLFELTNTLKIAFVP RDNKHLSYNFVAGIAISVALYSVSFALVGIAGY