- Transcript BART1_0-u35721.007
- Transcript IDBART1_0-u35721.007
- Gene IDBART1_0-u35721
Barley RTD
Exon Structure of BART1_0-u35721.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 405760204 | 405760078 | + |
| chr5H | 2 | 405760512 | 405760450 | + |
| chr5H | 3 | 405761523 | 405761364 | + |
| chr5H | 4 | 405762633 | 405762486 | + |
| chr5H | 5 | 405762807 | 405762730 | + |
| chr5H | 6 | 405763442 | 405763358 | + |
| chr5H | 7 | 405765225 | 405763535 | + |
| chr5H | 8 | 405765987 | 405765455 | + |
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 | 0.41481 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0.13863 | 0.0893252 |
| morex | EPI | 0 | 0 | 0.00000000105984 |
| morex | ROO | 0.0657778 | 0 | 0.478231 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.610862 | 0 | 0 |
| morex | RAC | 0 | 0.0000000145022 | 0 |
| morex | INF1 | 0.855899 | 0.503462 | 0 |
| morex | INF2 | 0.949026 | 0.434627 | 0.377684 |
| morex | CAR5 | 3.18085 | 1.06736 | 1.98568 |
| morex | CAR15 | 0.798578 | 0 | 0.653303 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0.0505015 | 0.0929157 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g21250.2 | +2 | 2e-94 | 297 | 171/183 (93%) | protein|clathrin adaptor complex small chain domain containing protein, expressed |
| TAIR PP10 | AT3G09800 @ ARAPORT AT3G09800.1 @ TAIR |
+2 | 1e-68 | 226 | 127/178 (71%) | Symbols: | SNARE-like superfamily protein | chr3:3006731-3007916 REVERSE LENGTH=179 |
| BRACH PP3 | Bradi4g08770.4.p | +2 | 3e-99 | 309 | 178/183 (97%) | pacid=32783612 transcript=Bradi4g08770.4 locus=Bradi4g08770 ID=Bradi4g08770.4.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 (2885 bp)
>BART1_0-u35721.007 2885 150831_barley_pseudomolecules CTCGTCCATTTCCGCTCGCCTAATCCCTCCCGTCTTTCTCTACACTCGTCTGCTGCATCT CAGATCTCGCGGGCACCAACAAACCAAAGCAAAGCTCTCCCGCTGTCCCGATCACTCTCC CTTCCAGGAAGCTTGGACCGGAGGAAGGTGCTGAGAGGGCGGAAAGGAGGCCATGGGGGA ATTCTCCAAGGAATCTTGCCCGTCTGTGAAGAACATTTTGCTACTGGATTCTGAGGGAAA GCGCGTTGCTGTGAAGTACTTCTCGGATGATTGGCCGAACAACGCATCTAGGTTGACCTT TGAAAAGTCCATTTTTACTAAAACTCTGAAGACAAATGCACGCTCAGAAGCTGAGATAAC ATTGCTTGATGGTAATATTGTTGTTTACAAGTTTGTACAAGACCTTCACTTCTTCGTCAC TGCCGGAGATGATGAGAATGAGCTAATCATAGCAAATGTGCTACAGGGTTTTGCTGATTC GGTTGGTCTTCTACTCAGGGGTGACGTTGAGAAGAGGACTGCACTTGAGAACTTGGACTT GATACTTCTCTGCATTGATGAGATTATTGATGGCGGCATAATTCTTGAAACAGATGCGAA TACCATTGCGGGGAAGGTTGCAACCAATGCTGCTGACGGTTCTGTTCCCTTCTCTGAGCA GACAATATCCCAAGCTCTGGCCACAGCCAGGGAACACTTTGCAAGATCTCTTCTGAAGTG AGAAACCACTGCTTCTTCTGTCACCCCTGTTACAACTTGTGTGTGTTTGAGGTCTGGCTA CTATGCTATAGGCCTGGTAGCGGTCACTTAACCAGAAGCGCAACTGTGACAGACAGATTT GTCTGGATTCTTCTTAAATGATATGTAATACTATTTTCTCGTCAAATGCATGCTGCGTGT CGTACATTTTCTGGAGGTATAGAGAAATAATTTTTGACGTTAATCCAATTTCTGCTAAAT AACACTCTTCTCAAACCGGAAAGGGCGGATATCGCTTCAACTTTTTTTTTTTTTTTTTGC CTTTCGTTTATTTCTTTACAAGAATTATGTGTGTTCCCAAGCATGAGCCAGAAGTGGCCT TATTGATGAAGCGTTATTGCTAGGGGTGTTATGTTAGGAGATGAACCTCTGAAGTCTTAT AGGCAGCCCAAATGTGTGCAAGAGGGATGTTTAGCCTCCCGTACAATAGTCATTGAGACA AGTGCCGAATATTCTATGTTAGCCTTCACGGGAGAAAAAAATGAAATTAAAGGGACCAGA GGAAAATTGAAGGAAGAACAACGAAAGGGGTTTGTCCCCAGGGCTGTGAAGTTCAGATCT ACCACCCCATCTCTGTAAAGTTATGGTTCCACCATCTTTGATGAGTTTATTCTAATCCTT ACCTTTTGCAACCCTAAATCTTACTGTTGTCATCTAAGACAGTGATATCTTAATGCATGA AAGCCTCTAAAGCTACTTAGAGAAGAACCTCTAGTGTCCCACATTTGAATGGCTTCATCT AGTGGGTTTTACCCTAATTTAGGGAGTTTCCCACGTTAATATTTGGTGTATATGTGTGTT TATATTGATGTTACATTTTTGTAGAAGAATGTCTAGAAGCACTTAGTACTTGTCCTAGAT ATGTGTTGGAAGCACTCAGGGAGAAAAGAAAGTACTTCCGCTCGCTGCTTGCATGACCGC ACAAGGCAGCTGAGGCAAGAACAGAATTCAGAAAGGTGCGCTCCTGCCCTGCGCACCGCG TCGGCCGTCACTCCGGCGTCGGCGGCCACCAGTCTCGCCGCTCCCCACTCCAGGGACGGC GCCTACCTCCCGCTCCTAGGTGCCATGGCCTCTAGGGTCTTCCTGTCCAGGCCCCTCTCG CTGGAGCCCGACTCCCCCCCGCAGTCTTCGCCAAGATCCCGTTGCATGGTCGCGGCCTCA GCTCAGATCTCTCATCGTGCCGTAGATCCTGGGCACCGCCTTCGGTCCGCTGACCGCTCG TGCAGGGTGGCGGCACGGGGGCCTCTTGCGCCCCCACTCATCCTCCGGCGAATGGTGGGT GGCAGACCAAGATGGGTCGTCGCCCGCGGGCTCCGCCTGTCCGTGCCCCACCTGTGCGAC GTCGGCGCCTGGCGGGGCGGCCCCGTGCACTGCCGGCCCCTCGACCGCCGCCCTCCTCAA GGCCACCCCCGAAGCTTCATGGATGCTGCTACAACTGCAGGAGTGATGGGCATATCTATG TCGACTGCACGAATCCTACGTTCCGTGTCCCGGTGCCGTGGGGCCGGTCACACGTCGCGC GGGTTTACGTGTCCCCGCAGCCCCTCTCCGGTGGAGAAGCCGTCGCGTCCCCCGCCGGCC CTCCGCTCTAAGGTTTACCCTACCAAACGAATTTCAAATGCCACAAAACTTTAATATGAT TTTTTCTGGACTATATGAAGACCTGCAAGCATCAGAAGTGGACGAGAGGCCGAACGAGGT AGGCACAAGCCAACAGGGCGCGGCCGCGCCCTAATGACTTGTGCCCCCCTAGATGCCTCC CGCCGTCCCTCTCTGACCTATAAATTCACAAATATTCCGATGCACTCCCGAAACACTTTT TCCGCCGCCGCAAGTCTCTGTTCTGACGGAAGGCCATCTAAACCTCCATTCCGGCGATCT GTCGGAGGGGAGATCAGTCACGGAGGGCCTCTACATCAACCTTGTTGCCCTCACCGTGAT GTGTGAGTAGTTTACCACATACCTACGGGTCCGTAGGCAGTACCTAGATGACAATCTCTC TCTCTTATGATCTTCAATACCATGTTCATCGCATCTTCGCTTTGATCTATCCGATGTAAT CACTATGTATGGTGTGTTTGTTGGGGTCCGATGAATTGTGGGTTTATGTTCAGATTATTC ATGAA
Protein Sequence (257 aa)
>BART1_0-u35721.007 257 150831_barley_pseudomolecules MCWKHSGRKESTSARCLHDRTRQLRQEQNSERCAPALRTASAVTPASAATSLAAPHSRDG AYLPLLGAMASRVFLSRPLSLEPDSPPQSSPRSRCMVAASAQISHRAVDPGHRLRSADRS CRVAARGPLAPPLILRRMVGGRPRWVVARGLRLSVPHLCDVGAWRGGPVHCRPLDRRPPQ GHPRSFMDAATTAGVMGISMSTARILRSVSRCRGAGHTSRGFTCPRSPSPVEKPSRPPPA LRSKVYPTKRISNATKL