- Transcript BART1_0-u24401.011
- Transcript IDBART1_0-u24401.011
- Gene IDBART1_0-u24401
Barley RTD
Exon Structure of BART1_0-u24401.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 659169943 | 659169815 | + |
| chr3H | 2 | 659171437 | 659171266 | + |
| chr3H | 3 | 659171629 | 659171536 | + |
| chr3H | 4 | 659172666 | 659172481 | + |
| chr3H | 5 | 659172823 | 659172776 | + |
| chr3H | 6 | 659173083 | 659172898 | + |
| chr3H | 7 | 659173257 | 659173171 | + |
| chr3H | 8 | 659173653 | 659173567 | + |
| chr3H | 9 | 659174503 | 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 | 0 | 0.00128373 | 0 |
| morex | ETI | 10.6978 | 7.3474 | 7.61467 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 1.07523 | 2.18475 | 1.78629 |
| morex | ROO | 0 | 0.772254 | 0.711503 |
| morex | ROO2 | 9.57555 | 7.30626 | 1.00208 |
| morex | NOD | 0 | 8.94425 | 0.000000261267 |
| morex | RAC | 14.598 | 10.6635 | 11.7287 |
| morex | INF1 | 3.9944 | 2.93661 | 0.00000691962 |
| morex | INF2 | 0.0000000993433 | 6.80405 | 0.913738 |
| morex | CAR5 | 0.0000000136057 | 0 | 0.16032 |
| morex | CAR15 | 0 | 0.829989 | 1.28904 |
| morex | LEM | 14.5295 | 7.26344 | 6.40315 |
| morex | LOD | 9.01206 | 9.55571 | 18.5929 |
| morex | PAL | 6.18356 | 5.32182 | 10.8328 |
| morex | SEN | 2.14177 | 0.00311095 | 2.79 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g70920.2 | +3 | 3e-137 | 402 | 207/301 (69%) | protein|cullin-1, putative, expressed |
| TAIR PP10 | AT4G02570 @ ARAPORT AT4G02570.4 @ TAIR |
+3 | 8e-36 | 143 | 105/319 (33%) | Symbols: CUL1 | cullin 1 | chr4:1129315-1133435 FORWARD LENGTH=738 |
| BRACH PP3 | Bradi2g60057.3.p | +3 | 9e-161 | 461 | 236/304 (78%) | 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 (1757 bp)
>BART1_0-u24401.011 1757 150831_barley_pseudomolecules ACCAAACCCCTCGAAAAAGCTGAAACCCGTCCCCCAATCCGCCGTCGGCTGCCCTCCTCA CCCCTACCGCGAACGGCAGGCGAGACGGCGGCGGCGGCGAGCACCGCCCGATCCTCTCCC CCCTCGTCGATATTTCCATTGCTTCAGTTCACTGTAGGAGCAAAGCAGTAAAAATGAATG CGCACCTCAGCTTTGAGGATGGCTGGAAGGTCCTGGAACAGGGCATTTTGACATGCTCAA AGATTTTGGAGGGTTCCACTGGTACAAGGCCTACTGTTGCTGAGTACATGAATTGCTATG ACTGTGCTTATAGAATGGCTGTGCAGACAACCAGCTATTGTGAAGAGATGTACAATGGTT ACAGGACTACACTTGCAGAATCTGTTCGTGCACTGGTTTTACCCCATCTGATGCACAAGA GAGATGACTACCTTTTGAGACAGCTTGAGAAAATGTGGTCGAACTATTGTATCATGGTTA AATGTATATCTGGCTTCTTCAACTATTTGGACCGTTGCTTTGTTGAGCAAAGAAAGCTAC CTTGTCTTGAAGACACTGCTGCCACTTCTTTTTTCTCGACAGTCTTTTCGTTCTTTAGCC ATGAAGTATCAGAGGCTCTACTGACTTTGATTCGCCAAGAGCGTGATGGAAGCAATGTTG ATATGGACATCTTGATGGTCATTATGCGTGGCATATGTCGCTCTGAAGTCAAATCCTTCA TGAGAAATGCTGTTGTCCAAGATACATATGCTTACTACTCCAGGAAAAGTTCTGAATGGA TAGTTCAGTACCCTCTACAAGATTACCTTGCCATGGTCCAGGATTGTATGGAGAAGGAAA CCATGAGATTGATGAGCTATCTGCATATTCCTGAGGGAGATAGCACAGAACTCTGTTTGA AGGTTGTTAGTGCTCCATTGATGCAAATGTATGACAGCTATGCAAGAGAGAAACAGATTG GTGGCCAACTTTTGCTTCAAACATACAAGACTGTGGAGGATGATCTGCTGGCCAGATGCA ATCGCTTGACAATTGACAGCGGCGTGGACAACAGTTCTGGCAGTTACATGGAGTAGAAAG GAAATGCACTTCAGCTAACATTCATCTATAACCAAGATTACATACAGGAAGGGGTTCTAG AACATGGCCTACATCTGGGGGAATTTTTTGTGCGGCTGCTCGGTTTTTGGTACCGTGGAT TTTGTTGGCAAGGTTCGCCTAGATTAAACGCTGTACTGAATGCGAAGGGGATACCTCTTA AGTGCTGCCTCCTACCCCATTATGGTCAACAGCATCTGAAATGTACAGGATGGCTGGTCA ATTTATGCCAATGGCAGTTTATTTTGATCGTTGTCTAGCGAACATTAGGCCGGTCAGCAC CTAGCACTCTTAGTGGCTGGACATGGAGTATGTGGTCATGACACCAGAATGATCGGTGCA TTGCCTGTGTGCCTTTTGCTTGCGAGCTTCTGATGCTGTCTATGGTCTAAGCTTATCTAT GACTTGATGTTACTTTCCTGTGTTTGTGTGCTTGCCTAAATTGCTAAACTGTAGGTTGGA TGTGTTTTCGCTTATTTCATGTCAAGTTTGCTGTTATGGTTGCAGTTCTTTCCTTGGTGG GCCATAATTGTTTGCAATTTTAGATTAGATTATAAACCCTGGTTCCATTATTAATGGGGC ATGGATCTTATACCTTGTTGGTCTGACTTTAAGCTATTCTTGCGGCATATCCATTTTCTT GAATTAATAAAGTGCTC
Protein Sequence (300 aa)
>BART1_0-u24401.011 300 150831_barley_pseudomolecules MNAHLSFEDGWKVLEQGILTCSKILEGSTGTRPTVAEYMNCYDCAYRMAVQTTSYCEEMY NGYRTTLAESVRALVLPHLMHKRDDYLLRQLEKMWSNYCIMVKCISGFFNYLDRCFVEQR KLPCLEDTAATSFFSTVFSFFSHEVSEALLTLIRQERDGSNVDMDILMVIMRGICRSEVK SFMRNAVVQDTYAYYSRKSSEWIVQYPLQDYLAMVQDCMEKETMRLMSYLHIPEGDSTEL CLKVVSAPLMQMYDSYAREKQIGGQLLLQTYKTVEDDLLARCNRLTIDSGVDNSSGSYME