- Transcript BART1_0-u02930.003
- Transcript IDBART1_0-u02930.003
- Gene IDBART1_0-u02930
Barley RTD
Exon Structure of BART1_0-u02930.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 320542554 | 320541260 | + |
| chr1H | 2 | 320542741 | 320542688 | + |
| chr1H | 3 | 320543924 | 320543220 | + |
| chr1H | 4 | 320544533 | 320544030 | + |
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 | 0.87865 | 0.953546 | 1.17278 |
| morex | ETI | 0.899286 | 0.866015 | 0.732642 |
| morex | LEA | 0.917207 | 0.684973 | 0.583666 |
| morex | EPI | 0.723784 | 1.68498 | 1.07358 |
| morex | ROO | 0.1981 | 0.705874 | 0.312507 |
| morex | ROO2 | 0 | 0.410923 | 0.717443 |
| morex | NOD | 0.758648 | 0.626973 | 1.07749 |
| morex | RAC | 0.990998 | 0.403251 | 0.256182 |
| morex | INF1 | 0.780748 | 1.3919 | 1.7715 |
| morex | INF2 | 2.29368 | 2.07463 | 2.23346 |
| morex | CAR5 | 1.02063 | 1.61881 | 1.51956 |
| morex | CAR15 | 0.917496 | 0.577984 | 0.685862 |
| morex | LEM | 0.485111 | 0.22178 | 0.628474 |
| morex | LOD | 0.586013 | 0.427884 | 0.718247 |
| morex | PAL | 0.511296 | 0.262281 | 0.512129 |
| morex | SEN | 0.940674 | 2.00193 | 1.76388 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g06770.1 | -1 | 3e-75 | 243 | 134/153 (88%) | protein|40S ribosomal protein S27a, putative, expressed |
| TAIR PP10 | AT2G47110 @ ARAPORT AT2G47110.2 @ TAIR |
-1 | 6e-72 | 233 | 131/158 (83%) | Symbols: UBQ6 | ubiquitin 6 | chr2:19344701-19345174 FORWARD LENGTH=157 |
| BRACH PP3 | Bradi3g29730.1.p | -1 | 9e-82 | 260 | 139/159 (87%) | pacid=32819956 transcript=Bradi3g29730.1 locus=Bradi3g29730 ID=Bradi3g29730.1.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 (2558 bp)
>BART1_0-u02930.003 2558 150831_barley_pseudomolecules TCTTATTGATGTTTGTTGCTATTCAAAAAGTTACTCCTACCATAAAACATTTGTGTGAGG AGCGTCTAAGTAACAATTTCTCACTATATATGCTGCTACATATATTTTCTTCCGTGCTAC GGAACTATCTTTAATTAGTACACGATGTGATGCTGAGATTACTTTGCTTCTGCTGTGCTT TTCAGTCAACCCCAAATGTATTTGTGTGTTAATTCCGAACACCCTATTATTATAGGGTTG CTATCACGATGCATACCAAAGCACATTTCAATTTCATCAGACCAAAATAATTGTTCTAAC CACAAATATCCACTGAAAAATTCATTACCAGACGTACTACACGGAATCCATGGCGCTAAT CCAACTCCGTCACTGAATCACACACCCAATCAATCACTGTCGATCTCTGGGCCCTGCGCC TCGGCGTAGGCGTAGGTGAGGCCGCACTTGCCGCATGCGTGGCGGTCGGCGTGCGCCGCC ATGAAGGTCCCGGCGCCGCAGTCGGGGTTGGGGCACTCCTTGCGCAGCCTCTCCACCTTG CCCGTGGCGTCGTCCACCCTGTAGTATCCCAGCACGGCGAGCGGGGTCTTCTCGCGCTCG TGCTTGACCTTCTTGGGCGTGGAGTAGGTCTTCTTCTTGCGCTTCTTGGCGCCGCCGCGG AGGCGGAGCACCAGGTGCAGCGTCGACTCCTTCTGGATGTTGTAGTCGGCCAGCGTGCGC CCGTCCTCCAGCTGCTTCCCGGCGAAGATGAGCCGCTGCTGGTCCGGCGGGATCCCCTCC TTGTCCTGGATCTTGGCCTTGACGTTGTCGATCGTGTCCGACGACTCCACCTCCAGCGTG ATCGTCTTCCCCGTCAGCGTCTTCACGAAGATCTGCATCGTGCCGCAGTTCGCCGGTCGC CGCAATCCCCCGAGATTTACGACCTGTTGCGGCGGCGGCGGCGGCGCGGATTGGGATTTG AGAGCTTGGTTGGTTGGGTGTCGCGGCCGCTGGGGGGTGGGATTATATCTAAGCCTGGCT CGTTTGATAGGCCGTCCGATCCGCGACGGACGGCTTTGATCGATCGGGCCTGAACCGACC CGTGAACGAGCCGGACACGGCGAGGACCCGTGAGACGGAGGACCAGACCGGCAAGTAAAA CCAAAGCGGCGCACCGCGCACGCGACGCCTGAAGCGAGGAGAGGAGAGAGGGAGCCGGTG AAGCGCGCGGCGAGCGGAGGCAGAGGGAGGGGCGCCGCGTTCGCCCGGTGGGAGAAGCGA TGTCGTCCATCGGCTCCTCCAACATCGGCTTCCAGCTGCTGAAGAAGTCCGGGTGGAAGG AGGGCACCGGCCTCGGTGCGCAGGAGCAGGGGCGGTTGGAGCCAGTAGAGACTCGTGTCA AGAATAACAAGCGTGGTTTAGGTTCCAAAGAACCAAAGCCCAAGGCTGAGGATGATGTTG AAACGGCTCCTAGTAAAAGGCCCAAGGTGAGCAAAGCATTATTGTTAACTTGATTCCAAA AATTGTTATGTTGTTTGTAGTTCACGAGTTCTGCCAATTCTCACAAAAATTCTTTATTAC TATTCGCGTGATACTGTTTGAAAAGGCATCTGTGTTTATAGTTAAGCAAACGTGACACAT TATACTCCCTCCGTCCCAAAATAAGTGTCTTAAGCTTAATACAATTTTATACTAGAGCTA GCACAAAGTTAAGACAGTAATTTTGGGACGGAGGGAGTATCAGATATTGTAAGAGTTAGA GTAACTCTAGCAGAGTCACTATACTGCCAATATGTTGATTTCTGGCCAAAAAAGGGCACT TTAGCAGAGTCACCATACCTATCAGAATCGCCATAATTAATGAAGCGTTCTCTCCCAGCC TCCATATTTGCCGTTTGGGGGACAACATTTGGAGCGCATTCCATATGACAGTTGTGTGGG GCGCGAAGAAAACTTCACGTGGCCCCCACCTCATGCAGGGTGGCAGGGAAATTGGGGGAA AAGGATGTCCCATTGACAAATAGGTCCCATGACATGGAGCGGCTAAATATGGCGACTCTG ACCGCCAATATGGACAGAACCCGCCGTCAACGAAGAAGGCAAAGCTGGCCGCAAAGAGGA TACGAAAGATGCAGGAAGAGGAGAAGAGAGCACAAGAGAAGGAATTCGAAATTGCTTTCT TCAGGGAATTTTGGCCTGATAACGTGTAAACCACAAACCTGGCGGCGTTGCAACTGTTGG CATCGGCTGATAATGCCATTGTATAGCTTATCGATGCTTCTGCAACTTGCACCTACTGTT CACTGTTTCTATCTTGTTCTGGCCCGAGTGTTACATTGATAGAGATATGTTGTAACAAAT GTTCTTTGATTGAAGAAAATGCGACTTGGGTTCCATGCATTGCTGGGGCATATAGTATGC ACTAGCACCTTTGAGCAGTACTAATGCATGAGGCAACCGAAAACACATTTAAAAGCTGTG AAAAGTCCGGAAAAAAATTTATGACATAGAGATGAACATTTGTTAAGTGTCAGGTTTGAA TTCAAATTCATAACTTTGATACCAAAAAGGCAAAACGG
Protein Sequence (162 aa)
>BART1_0-u02930.003 162 150831_barley_pseudomolecules MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN IQKESTLHLVLRLRGGAKKRKKKTYSTPKKVKHEREKTPLAVLGYYRVDDATGKVERLRK ECPNPDCGAGTFMAAHADRHACGKCGLTYAYAEAQGPEIDSD