- Transcript BART1_0-u25305.002
- Transcript IDBART1_0-u25305.002
- Gene IDBART1_0-u25305
Barley RTD
Exon Structure of BART1_0-u25305.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 679660115 | 679660064 | + |
| chr3H | 2 | 679660340 | 679660215 | + |
| chr3H | 3 | 679661103 | 679661062 | + |
| chr3H | 4 | 679661262 | 679661203 | + |
| chr3H | 5 | 679661440 | 679661382 | + |
| chr3H | 6 | 679661746 | 679661666 | + |
| chr3H | 7 | 679662852 | 679662778 | + |
| chr3H | 8 | 679662990 | 679662943 | + |
| chr3H | 9 | 679663157 | 679663089 | + |
| chr3H | 10 | 679663373 | 679663240 | + |
| chr3H | 11 | 679663948 | 679663873 | + |
| chr3H | 12 | 679664766 | 679664576 | + |
| chr3H | 13 | 679665014 | 679664934 | + |
| chr3H | 14 | 679665376 | 679665181 | + |
| chr3H | 15 | 679666829 | 679666485 | + |
| chr3H | 16 | 679667043 | 679666924 | + |
| chr3H | 17 | 679668390 | 679668331 | + |
| chr3H | 18 | 679668649 | 679668530 | + |
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 | 1.31113 | 14.0762 | 6.98555 |
| morex | ETI | 0 | 0.337084 | 0 |
| morex | LEA | 5.57157 | 1.81243 | 1.21777 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 1.63826 | 0.446329 | 0.280334 |
| morex | ROO2 | 0.326148 | 0 | 0.375981 |
| morex | NOD | 1.95507 | 0 | 1.41542 |
| morex | RAC | 0 | 0.674137 | 0.373832 |
| morex | INF1 | 24.029 | 21.3397 | 15.4292 |
| morex | INF2 | 21.9043 | 13.4557 | 12.2732 |
| morex | CAR5 | 0.00000000104494 | 7.39804 | 2.29075 |
| morex | CAR15 | 0 | 1.79817 | 0 |
| morex | LEM | 0.37834 | 0 | 0 |
| morex | LOD | 0 | 0 | 1.01769 |
| morex | PAL | 0 | 0.591107 | 0.342151 |
| morex | SEN | 0 | 0.907409 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g68810.1 | +1 | 0.0 | 938 | 467/581 (80%) | protein|expressed protein |
| TAIR PP10 | AT1G24706 @ ARAPORT AT1G24706.2 @ TAIR |
+1 | 0.0 | 714 | 361/569 (63%) | Symbols: THO2 | THO2 | chr1:8742210-8755250 FORWARD LENGTH=1823 |
| BRACH PP3 | Bradi2g58697.4.p | +1 | 0.0 | 1034 | 502/554 (91%) | pacid=32780758 transcript=Bradi2g58697.4 locus=Bradi2g58697 ID=Bradi2g58697.4.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 (1935 bp)
>BART1_0-u25305.002 1935 150831_barley_pseudomolecules CCCCGATCCGGTCCCCATGGCCCGCTTCCTCTACGAGCTCTGCTGGGCGATGGTGCGGGG GGACCTGCCGCCGCAAAAGTGCCGGGCGGCGCTGGATTCGGTGGTGTTCGTGGAGGAGGT GAGGCAGGAAGAGTCCGGCTCCGTGCTCGCCGACATCGTCGCTCACCTAGGGCAGGATAT TACCATTTCTGGTGAATATCGCAGCCGTCTTGTCAAAATGACTAAGTCATTCGTGGAGTC TTCGTTGATTGCGCCTAGGCTTCTTCAAGAACGATGTGAAAGTTCCTATGGGAGGTTGAA CAGAGTAAGTCAAAGGGCCAGGATTTGAAAGCCAAGGAGGTCAGAGTCAACACACGACTT CTGTATCAGCAAACGAAATTCAACCTTCTAAGAGAGGAAAGTGAGGGCTACGCCAAGTTG GTAACCCTACTTTGTCAAGTAGGTTCAGATTTGGCTTGTCAAAATGCTTCTTCAGCAACT ATCAGCATTGTAAAGTCATTAATTGGACATTTTGACCTGGACCCGAATCGTGTATTTGAC ATTGTGTTGGAATGTTTTGAACTCTATCCAGACAACAGTATCTTTTATCAGCTTATACCT CTTTTTCCAAAGTCCCATGCTGCTCAAATTTTGGGGTTTAAATTTCAATATTATCAACAA TTGGATGTAAACAGCCCTGTTCCATCTGGTCTTTTCCGAATAGCAGCCCTGTTGGTCAAA TCTGGTCTTATTGACCTTGATAATCTCTACGCTCATTTACTTCCAAATGACGATGAGGCG TTTGAGCATTTTGGCTCCTTTGTTTCAAGGAAAATTGATGAGGCTACTAAAATAGGCAAA ATAAATCTTGCTGCTACTGGAAAGGACCTTATGGACGACGAGAAGCAAGAAATAACGATC GATTTATACACAGCATTGGAGATGGAAAATGATATAATTGATGAGCGAGCCCCTGAGATA GAAAAGAACCAGAAGCTTGGACTTCTTCTTGGTTTCCTCTCAGTCCATGATTGGGACCAT GCGCAGCTACTATTTGAACGTCTTGTGCAGCTAAATCCTGTCGAGCACGTTGAAATTTGT GATGCTTTATTTAGAATTATTGAGAAGACTATTTCGTCAGCGTACAGTACATATTGTGAA ACACATCATAAAATCACCCGCAACATTGACACTAAAATGATAGATGCATCATCTGTCTCT TCACATTTGGTTGATCTGCCGAAAGAGTTTTTCCAAATGCTTGCTGCTTGTGGACCATAC CTTCATCGTGACACACAATTATTCCAGAAGGTTTGCAGAGTGTTAAGGGTGTACCTTGCC TCGTCAAAAGAATCAGCCCGTACAGCGGGCATTATGTCTCCAGAATCTCGGGTCGAAGAA GCACTTGGGTCATGCTTGCTTCCTTCATTGCAGCTTATACCTGCCAATCCTGCCGTTGAT ATGGAGATATGGGGAGTTCTTTCCCTTCTTCCTTACGAGGTCTGTAATGCTTCATGGTTA TTACTTGTTGTACTGCACTACCTTTTTAATCAATCAGGCACTGTTCACGTTCAGGTGCGC TATCGTTTGTATGGTGAGTGGGAGAAGGACACTGAACAAAACCCAATTGTCCTTGCTGCA AGGCAAACAGCAAAGCTGGACACGAGACGGCTCTTAAAACGTCTGGCCAAGGAAAATCTG AAGCAGCTTGGCCGCATGGTGGCTAAACTTGCTCATGCAAATCCAATGACTGTACTTCGG ACAATTGTCCAACAGGTCGAAGCATACAGGGACATGATAAATCCAGTTGTGGATGCTTTT AAATACTTGACTCAGCTGGAATATGATATCTTGCAATATATTGTAATCGAACGGTTGGCT CAAGGTGGTCGTGAGAAAGTAAAAGATGACGGCCTTAACCTGTCAGACTGGCTTCAGTGT CTAGCATCATTCTGG
Protein Sequence (355 aa)
>BART1_0-u25305.002 355 150831_barley_pseudomolecules MDDEKQEITIDLYTALEMENDIIDERAPEIEKNQKLGLLLGFLSVHDWDHAQLLFERLVQ LNPVEHVEICDALFRIIEKTISSAYSTYCETHHKITRNIDTKMIDASSVSSHLVDLPKEF FQMLAACGPYLHRDTQLFQKVCRVLRVYLASSKESARTAGIMSPESRVEEALGSCLLPSL QLIPANPAVDMEIWGVLSLLPYEVCNASWLLLVVLHYLFNQSGTVHVQVRYRLYGEWEKD TEQNPIVLAARQTAKLDTRRLLKRLAKENLKQLGRMVAKLAHANPMTVLRTIVQQVEAYR DMINPVVDAFKYLTQLEYDILQYIVIERLAQGGREKVKDDGLNLSDWLQCLASFW