- Transcript BART1_0-u33637.028
- Transcript IDBART1_0-u33637.028
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.028
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84483365 | 84483165 | + |
| chr5H | 2 | 84483994 | 84483785 | + |
| chr5H | 3 | 84490295 | 84489767 | + |
| chr5H | 4 | 84491799 | 84491518 | + |
| chr5H | 5 | 84493205 | 84491913 | + |
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 | 0.0565023 | 0.22598 |
| morex | ETI | 0.593798 | 0 | 0.0278526 |
| morex | LEA | 0 | 0 | 0.165033 |
| morex | EPI | 0 | 0.569714 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.107847 | 0.115355 | 0.000000000236229 |
| morex | NOD | 0.172909 | 0 | 0.00000000650079 |
| morex | RAC | 0.0953922 | 0.0336403 | 0.809019 |
| morex | INF1 | 0 | 0 | 1.07339 |
| morex | INF2 | 0.517251 | 0 | 0 |
| morex | CAR5 | 0 | 0.827651 | 0.346422 |
| morex | CAR15 | 0 | 0.106289 | 0 |
| morex | LEM | 0 | 0.00020936 | 0.275597 |
| morex | LOD | 0 | 0.0015492 | 0.0351042 |
| morex | PAL | 0 | 0.314572 | 0 |
| morex | SEN | 0 | 0.100023 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g14610.2 | +1 | 6e-123 | 384 | 191/274 (70%) | protein|DCL2, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.2 @ TAIR |
+1 | 1e-80 | 222 | 119/270 (44%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774525 REVERSE LENGTH=1374 |
| BRACH PP3 | Bradi1g15440.1.p | +1 | 5e-162 | 423 | 218/273 (80%) | pacid=32792173 transcript=Bradi1g15440.1 locus=Bradi1g15440 ID=Bradi1g15440.1.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 (2515 bp)
>BART1_0-u33637.028 2515 150831_barley_pseudomolecules GTAGAATCGTGCACTTCACATGGTGTTGAGTTGCCACCTGAGCTCTGCAGACTAGTCATG TCACCAGTCTCTACTAATACTTTGTACAGCTTCTCGATTATTCCTTCTGTAATGTACCGC ATCCAGTGTCTGCTTCTTTCTGCAAAGTTGAAAGATCAACTGGGCCCAATAATGCAGCAG TTTGCCATACCAGCTCTGAAGATTCTAGAAGCAGTAACAACCAAGGAATGCCAAGAGGAA TTTTCACAGGAATCATTAGAAACCCTTGGGGATTCTTTCCTCAAGTACATCGCCACGCAA CATCTGTATGTCAAACACAAGCTTCAGCATGAGGGGACATTAACCAAGATGAAGAAAAAC TTAATCTCGAATGCAGCTCTATGCCAGCTGGCCTGCAACAACAATCTTGTGGGTTACATT CAAGGGGAAGAGTTTAACCCAAAAGGTTGGATCATTCCAGGGCTTGGTTATGACATGTGT GGTAACAGCAAATTTTCCTTTTTAAGCTCCAATGATATGCACACTTTGAGGAAAATGTCT GTTAGAAGTAAGAGAATAGCAGATACAGTTGAGGCATTGATTGGAGCCTACCTTGGTGCT GCGGGAGAACAGGCTGCATTTGTTTTCCTAAAATCATTAGGATTGGATATAGGATTTCAC AGCACTATTCCACTTGAAAGGAAGATTGTATTAAAATCTGAAAAGTTCATCAACGTGAGA AGTTTGGAAATGATTCTTGGTTATGAGTTCAAGGATACTTCATTGTTGGTGGAAGCATTG ACACATGGGTCATACCAGACTGCTGGCACTACTGCATGCTATCAGGTTGATTTGAAAACC TCTGGACCTCTCTATCTTACTTTCATTAGCTCCTCCATATTTTATCTTTCATGGAACTTT CTTCACCAAGCGCAAATATATGAACACTGTTGCTACACTGAGGCTTGAGTTTCTCGGAGA CGCTGTGTTGGACCATCTCTTCACTATATATTTCTACAATAAGTACCCTGAATGTACTCC AGAATTGTTGACAGATCTTAGATCTGCTTCCGTTAACAACAATTGCTATGCGCATGCAGC TGCTAAAGCAGGACTAAACAAGCACATTCTTCATTCGTCATTGCCATTGCACGGAAGGAT GGCTTACTACTTTGAGAATTTTACTAAGCACCGATTTACAGGTCCATCACATGGTTGGGA AGCTGGCATTGGTCTACCCAAGAAACCCCTCAAAACGCATGTACTACCAGTCATTCCATG GTTGCAAGGATACAAAATCACCAGACTGGCAGACTCACAACCAACCTAGGCTGGTACTGG TCGCTGTGCAGTTCCTTATTTTAATCAGTAAAATATCACCTTTAAAATTTTGAGTACTAC TGTAGGCGACCTGTTACCGATCCAAATTTGCCGTGTGGCTTACATCTTTGTTTATGCAAA TACACATAATTGCCTGGATAACAAATATTCGATTCAGATTATTGAATCACCTACCCTAAT AGGGATAAGGCAATGGCTGATACAAAACTATCATCTATTCCCCTTCAACATGCTCTTTGT TCACTAGCTTTGGACTAGAATATGAATTTAAATACAAATTCAAGTTCTTAAACTGTGCAG GGTGTGAACAACTATTGTTGAGTCTTGAGACGTGGTTGCTCTATTTGTTTTCTAAAGTGG ATATAGTTTCTAGATTTTCATAAGCATCCTATGTTTTGTCCACTTGTGGATTCTTTTCAA TTCTGTCACATAACTGACGTTTTGCCTGCTGCTTATTTGCAAACGAAACAGGTTCTTGGG GATGTTATTGAATCATTAGCCGGTGCCATTTATCTTGACAGCAAGTATGACAAAGAGGTG GTTTGGAGAAGCATGAAAAAGCTATTGGAGCCTCTTGCGACACCGGAGACGGTTGAGCGT GACCCAGTGAAACTGCTGCAGGAATTTTGTGATCGCAGGTCTTATAGCAGGTCTTACACA AAGGTCCAGAAAGATGGAGTGTCTTCGGTGGTTGGGGAGGTACAGGTAGAAGGGACTACC TACTCAGCAACTGGAACTGGCCCTGATAAGGTTGTCGCAAAAAAGCTTGCAGCGAAGTTG CTGCTAGAAGATCTGAAGGCTATAGTACCATGACACGCTTGCATTTGCAGATGATGCAAT ACTGTATAGCTCCTTCCGACTTCACTTGTATTGTGACTAGCCTGTAGGTAGCCTTTTGAA GTTTTTGTGGGAGTATGCGTGTACTTGACAAATGTGCAGCTCAATCATTGCTTGTGAATA TTCAGACTATTGAACTGCACATCTGTGAAGTACGGGCATCGTCTCTCAGAACCATGGTAC AGACGATAATGCTACAGTATCCTTAGACTTCTACTTGTACAGTTGTAAGCACAATCTTGA GTGGAAAGCTGGAATATCTTTTTCTCTCCATCGGGCAGTGCAGTGCATGTATCTTTTATT TTTTGAGCGGGGGTACCTTTTGTAGGGCTGGTAATTGTTTTTTTTAAATGGCAGG
Protein Sequence (315 aa)
>BART1_0-u33637.028 315 150831_barley_pseudomolecules VESCTSHGVELPPELCRLVMSPVSTNTLYSFSIIPSVMYRIQCLLLSAKLKDQLGPIMQQ FAIPALKILEAVTTKECQEEFSQESLETLGDSFLKYIATQHLYVKHKLQHEGTLTKMKKN LISNAALCQLACNNNLVGYIQGEEFNPKGWIIPGLGYDMCGNSKFSFLSSNDMHTLRKMS VRSKRIADTVEALIGAYLGAAGEQAAFVFLKSLGLDIGFHSTIPLERKIVLKSEKFINVR SLEMILGYEFKDTSLLVEALTHGSYQTAGTTACYQVDLKTSGPLYLTFISSSIFYLSWNF LHQAQIYEHCCYTEA