- Transcript BART1_0-u24401.014
- Transcript IDBART1_0-u24401.014
- Gene IDBART1_0-u24401
Barley RTD
Exon Structure of BART1_0-u24401.014
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 659171169 | 659171119 | + |
| chr3H | 2 | 659171437 | 659171284 | + |
| chr3H | 3 | 659171629 | 659171561 | + |
| chr3H | 4 | 659172666 | 659172481 | + |
| chr3H | 5 | 659172823 | 659172776 | + |
| chr3H | 6 | 659173083 | 659172898 | + |
| chr3H | 7 | 659173257 | 659173171 | + |
| chr3H | 8 | 659173653 | 659173567 | + |
| chr3H | 9 | 659174371 | 659173736 | + |
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 | 6.5014 | 1.77378 | 6.25153 |
| morex | ETI | 0.891923 | 3.32623 | 1.73896 |
| morex | LEA | 0 | 0 | 4.05698 |
| morex | EPI | 3.70522 | 5.17443 | 6.10286 |
| morex | ROO | 4.40732 | 1.10825 | 1.41897 |
| morex | ROO2 | 1.62936 | 5.0252 | 0.105701 |
| morex | NOD | 3.43747 | 2.7605 | 5.88272 |
| morex | RAC | 7.37511 | 1.79542 | 0.218312 |
| morex | INF1 | 0 | 1.01981 | 2.40772 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 3.34974 | 0.42319 |
| morex | LOD | 0.971934 | 5.05112 | 0.884308 |
| morex | PAL | 5.42687 | 3.0634 | 0.00000201833 |
| morex | SEN | 1.69696 | 4.41252 | 5.19539 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g70920.2 | +2 | 1e-105 | 318 | 168/247 (68%) | protein|cullin-1, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g60057.3.p | +2 | 3e-121 | 358 | 187/247 (76%) | pacid=32775524 transcript=Bradi2g60057.3 locus=Bradi2g60057 ID=Bradi2g60057.3.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 (1504 bp)
>BART1_0-u24401.014 1504 150831_barley_pseudomolecules ATCGTTTGTAGGGTATTGTGGGCCTTTGTTGAGTTTGTGTATCCAACTAAGTTCACTGTA GGAGCAAAGCAGTAAAAATGAATGCGCACCTCAGCTTTGAGGATGGCTGGAAGGTCCTGG AACAGGGCATTTTGACATGCTCAAAGATTTTGGAGGGTTCCACTGGTACAAGGCCTACTG TTGCTGAGTACATGAATTGCTATGAACAACCAGCTATTGTGAAGAGATGTACAATGGTTA CAGGACTACACTTGCAGAATCTGTTCGTGCACTGGTTTTACCCCATCTGATGCACAAGAG AGATGACTACCTTTTGAGACAGCTTGAGAAAATGTGGTCGAACTATTGTATCATGGTTAA ATGTATATCTGGCTTCTTCAACTATTTGGACCGTTGCTTTGTTGAGCAAAGAAAGCTACC TTGTCTTGAAGACACTGCTGCCACTTCTTTTTTCTCGACAGTCTTTTCGTTCTTTAGCCA TGAAGTATCAGAGGCTCTACTGACTTTGATTCGCCAAGAGCGTGATGGAAGCAATGTTGA TATGGACATCTTGATGGTCATTATGCGTGGCATATGTCGCTCTGAAGTCAAATCCTTCAT GAGAAATGCTGTTGTCCAAGATACATATGCTTACTACTCCAGGAAAAGTTCTGAATGGAT AGTTCAGTACCCTCTACAAGATTACCTTGCCATGGTCCAGGATTGTATGGAGAAGGAAAC CATGAGATTGATGAGCTATCTGCATATTCCTGAGGGAGATAGCACAGAACTCTGTTTGAA GGTTGTTAGTGCTCCATTGATGCAAATGTATGACAGCTATGCAAGAGAGAAACAGATTGG TGGCCAACTTTTGCTTCAAACATACAAGACTGTGGAGGATGATCTGCTGGCCAGATGCAA TCGCTTGACAATTGACAGCGGCGTGGACAACAGTTCTGGCAGTTACATGGAGTAGAAAGG AAATGCACTTCAGCTAACATTCATCTATAACCAAGATTACATACAGGAAGGGGTTCTAGA ACATGGCCTACATCTGGGGGAATTTTTTGTGCGGCTGCTCGGTTTTTGGTACCGTGGATT TTGTTGGCAAGGTTCGCCTAGATTAAACGCTGTACTGAATGCGAAGGGGATACCTCTTAA GTGCTGCCTCCTACCCCATTATGGTCAACAGCATCTGAAATGTACAGGATGGCTGGTCAA TTTATGCCAATGGCAGTTTATTTTGATCGTTGTCTAGCGAACATTAGGCCGGTCAGCACC TAGCACTCTTAGTGGCTGGACATGGAGTATGTGGTCATGACACCAGAATGATCGGTGCAT TGCCTGTGTGCCTTTTGCTTGCGAGCTTCTGATGCTGTCTATGGTCTAAGCTTATCTATG ACTTGATGTTACTTTCCTGTGTTTGTGTGCTTGCCTAAATTGCTAAACTGTAGGTTGGAT GTGTTTTCGCTTATTTCATGTCAAGTTTGCTGTTATGGTTGCAGTTCTTTCCTTGGTGGG CCAT
Protein Sequence (242 aa)
>BART1_0-u24401.014 242 150831_barley_pseudomolecules MYNGYRTTLAESVRALVLPHLMHKRDDYLLRQLEKMWSNYCIMVKCISGFFNYLDRCFVE QRKLPCLEDTAATSFFSTVFSFFSHEVSEALLTLIRQERDGSNVDMDILMVIMRGICRSE VKSFMRNAVVQDTYAYYSRKSSEWIVQYPLQDYLAMVQDCMEKETMRLMSYLHIPEGDST ELCLKVVSAPLMQMYDSYAREKQIGGQLLLQTYKTVEDDLLARCNRLTIDSGVDNSSGSY ME