- Transcript BART1_0-u02930.002
- Transcript IDBART1_0-u02930.002
- Gene IDBART1_0-u02930
Barley RTD
Exon Structure of BART1_0-u02930.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 320542554 | 320541066 | + |
| chr1H | 2 | 320542741 | 320542688 | + |
| chr1H | 3 | 320543336 | 320543220 | + |
| chr1H | 4 | 320544649 | 320544033 | + |
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 | 10.3163 | 6.80087 | 7.80338 |
| morex | ETI | 7.99142 | 7.40529 | 9.50069 |
| morex | LEA | 5.88198 | 5.20156 | 6.93201 |
| morex | EPI | 1.63743 | 5.59083 | 2.58427 |
| morex | ROO | 8.45565 | 5.55556 | 3.83516 |
| morex | ROO2 | 9.09456 | 8.45739 | 6.89895 |
| morex | NOD | 14.0583 | 12.1349 | 15.5452 |
| morex | RAC | 9.44301 | 10.4017 | 9.27966 |
| morex | INF1 | 9.23975 | 8.79716 | 6.37888 |
| morex | INF2 | 8.50541 | 8.13979 | 7.74414 |
| morex | CAR5 | 11.7255 | 19.3154 | 13.0314 |
| morex | CAR15 | 4.74857 | 4.67044 | 2.94235 |
| morex | LEM | 11.1817 | 8.4717 | 10.5835 |
| morex | LOD | 12.4031 | 9.58493 | 11.2252 |
| morex | PAL | 8.22618 | 9.1253 | 7.58468 |
| morex | SEN | 6.51761 | 7.95863 | 5.86789 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g06770.1 | -3 | 6e-76 | 243 | 134/153 (88%) | protein|40S ribosomal protein S27a, putative, expressed |
| TAIR PP10 | AT2G47110 @ ARAPORT AT2G47110.2 @ TAIR |
-3 | 2e-72 | 233 | 131/158 (83%) | Symbols: UBQ6 | ubiquitin 6 | chr2:19344701-19345174 FORWARD LENGTH=157 |
| BRACH PP3 | Bradi3g29730.1.p | -3 | 2e-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 (2277 bp)
>BART1_0-u02930.002 2277 150831_barley_pseudomolecules CCTAGCTCTTGAGCCCCAAATCTTGTTGTATTCATCGAAGATTGAGAAATCTTGATGTAT GAGATCCTCTAGGACTATCTGAAGAAGAAATTTGTTGTATCCCACATTTGATAATAATGG AAGAGAATTTGGGTGGCCTTCACACGTGGTTTTTCCCTTAAATTGAATGTTTTTTCACAT AAAAATCTGGTGTCTCTTATTGATGTTTGTTGCTATTCAAAAAGTTACTCCTACCATAAA ACATTTGTGTGAGGAGCGTCTAAGTAACAATTTCTCACTATATATGCTGCTACATATATT TTCTTCCGTGCTACGGAACTATCTTTAATTAGTACACGATGTGATGCTGAGATTACTTTG CTTCTGCTGTGCTTTTCAGTCAACCCCAAATGTATTTGTGTGTTAATTCCGAACACCCTA TTATTATAGGGTTGCTATCACGATGCATACCAAAGCACATTTCAATTTCATCAGACCAAA ATAATTGTTCTAACCACAAATATCCACTGAAAAATTCATTACCAGACGTACTACACGGAA TCCATGGCGCTAATCCAACTCCGTCACTGAATCACACACCCAATCAATCACTGTCGATCT CTGGGCCCTGCGCCTCGGCGTAGGCGTAGGTGAGGCCGCACTTGCCGCATGCGTGGCGGT CGGCGTGCGCCGCCATGAAGGTCCCGGCGCCGCAGTCGGGGTTGGGGCACTCCTTGCGCA GCCTCTCCACCTTGCCCGTGGCGTCGTCCACCCTGTAGTATCCCAGCACGGCGAGCGGGG TCTTCTCGCGCTCGTGCTTGACCTTCTTGGGCGTGGAGTAGGTCTTCTTCTTGCGCTTCT TGGCGCCGCCGCGGAGGCGGAGCACCAGGTGCAGCGTCGACTCCTTCTGGATGTTGTAGT CGGCCAGCGTGCGCCCGTCCTCCAGCTGCTTCCCGGCGAAGATGAGCCGCTGCTGGTCCG GCGGGATCCCCTCCTTGTCCTGGATCTTGGCCTTGACGTTGTCGATCGTGTCCGACGACT CCACCTCCAGCGTGATCGTCTTCCCCGTCAGCGTCTTCACGAAGATCTGCATCGTGCCGC AGTTCGCCGGTCGCCGCAATCCCCCGAGATTTACGACCTGTTGCGGCGGCGGCGGCGGCG CGGATTGGGATTTGAGAGCTTGGTTGGTTGGGTGTCGCGGCCGCTGGGGGGTGGGATTAT ATCTAAGCCTGGCTCGTTTGATAGGCCGTCCGATCCGCGACGGACGGCTTTGATCGATCG GGCCTGAACCGACCCGTGAACGAGCCGGACACGGCGAGGACCCGTGAGACGGAGGACCAG ACCGGCAAGTAAAACCAAAGCGGCGCACCGCGCACGCGACGCCTGAAGCGAGGAGAGGAG AGAGGGAGCCGGTGAAGCGCGCGGCGAGCGGAGGCAGAGGGAGGGGCGCCGCGTTCGCCC GGTGGGAGAAGCGATGTCGTCCATCGGCTCCTCCAACATCGGCTTCCAGCTGCTGAAGAA GTCCGGGTGGAAGGAGGGCACCGGCCTCGGTGCGCAGGAGCAGGGGCGGTTGGAGCCAGT AGAGACTCGTGTCAAGAATAACAAGCGTGGTTTAGGTTCCAAAGAACCAAAGCCCAAGGC TGAGGATGATGTTGAAACGGCTCCTAGTAAAAGGCCCAAGAACCCGCCGTCAACGAAGAA GGCAAAGCTGGCCGCAAAGAGGATACGAAAGATGCAGGAAGAGGAGAAGAGAGCACAAGA GAAGGAATTCGAAATTGCTTTCTTCAGGGAATTTTGGCCTGATAACGTGTAAACCACAAA CCTGGCGGCGTTGCAACTGTTGGCATCGGCTGATAATGCCATTGTATAGCTTATCGATGC TTCTGCAACTTGCACCTACTGTTCACTGTTTCTATCTTGTTCTGGCCCGAGTGTTACATT GATAGAGATATGTTGTAACAAATGTTCTTTGATTGAAGAAAATGCGACTTGGGTTCCATG CATTGCTGGGGCATATAGTATGCACTAGCACCTTTGAGCAGTACTAATGCATGAGGCAAC CGAAAACACATTTAAAAGCTGTGAAAAGTCCGGAAAAAAATTTATGACATAGAGATGAAC ATTTGTTAAGTGTCAGGTTTGAATTCAAATTCATAACTTTGATACCAAAAAGGCAAAACG GGGTGTGAATAATATGGGTTGTTGAATCTCACTAACACTTGATAATAGTTATATTTTACA TAAATGTTAAAAATCTGACAATCAGATTCACTATGCAAGAACAGAAATATAATGGTC
Protein Sequence (162 aa)
>BART1_0-u02930.002 162 150831_barley_pseudomolecules MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN IQKESTLHLVLRLRGGAKKRKKKTYSTPKKVKHEREKTPLAVLGYYRVDDATGKVERLRK ECPNPDCGAGTFMAAHADRHACGKCGLTYAYAEAQGPEIDSD