- Transcript BART1_0-u35643.001
- Transcript IDBART1_0-u35643.001
- Gene IDBART1_0-u35643
Barley RTD
Exon Structure of BART1_0-u35643.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 395635177 | 395634469 | - |
| chr5H | 2 | 395636061 | 395635917 | - |
| chr5H | 3 | 395638333 | 395636228 | - |
| chr5H | 4 | 395638652 | 395638423 | - |
| chr5H | 5 | 395639728 | 395639606 | - |
| chr5H | 6 | 395640406 | 395639813 | - |
| chr5H | 7 | 395640964 | 395640856 | - |
| chr5H | 8 | 395641517 | 395641314 | - |
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 | 7.73044 | 39.8583 | 29.2394 |
| morex | ETI | 22.2619 | 15.5387 | 14.3274 |
| morex | LEA | 25.7775 | 25.6493 | 20.5696 |
| morex | EPI | 5.08609 | 7.55828 | 9.40119 |
| morex | ROO | 6.25098 | 24.9037 | 9.04658 |
| morex | ROO2 | 9.57497 | 8.4313 | 13.454 |
| morex | NOD | 64.2425 | 35.7387 | 30.2918 |
| morex | RAC | 17.8089 | 18.1123 | 14.7615 |
| morex | INF1 | 52.5514 | 43.8196 | 47.6673 |
| morex | INF2 | 82.6632 | 77.4044 | 85.3239 |
| morex | CAR5 | 59.816 | 59.8154 | 59.2445 |
| morex | CAR15 | 35.5271 | 32.6658 | 41.9019 |
| morex | LEM | 18.0692 | 19.4498 | 10.9841 |
| morex | LOD | 24.636 | 14.3225 | 33.2424 |
| morex | PAL | 12.2556 | 15.9273 | 17.8828 |
| morex | SEN | 13.7591 | 24.9246 | 17.1238 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g21350.3 | +2 | 0.0 | 1132 | 626/1034 (61%) | protein|cig3, putative, expressed |
| TAIR PP10 | AT5G19400 @ ARAPORT AT5G19400.2 @ TAIR |
+2 | 0.0 | 598 | 318/696 (46%) | Symbols: SMG7 | Telomerase activating protein Est1 | chr5:6540603-6544262 FORWARD LENGTH=1059 |
| BRACH PP3 | Bradi3g20200.3.p | +2 | 0.0 | 1083 | 611/1037 (59%) | pacid=32819688 transcript=Bradi3g20200.3 locus=Bradi3g20200 ID=Bradi3g20200.3.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 (4220 bp)
>BART1_0-u35643.001 4220 150831_barley_pseudomolecules GGCTCCGGGCCGCCTACGACCGCCTTTGGGTCGAGTCCAACCCGAACACGGCACGGCGAC GACACACCAGACCACACACCGTCCCGTAAACAAAAAGACGAAAAATAGCCTGCCCTTCCT TCCTCTCTTCCCCTCCCCAAAATTCCCCTCTCCTTCTCTCGCTCCAGTCGCGACGGCGAC GGCGACGACGACGACGACGATCAGTTCGTTGCAGGTGATGGTACTGATGTTCAATTGATT AATGATGACTGTTCCGATGGATAGTACTGCTGTTCCGCCATCGCGGGACCTCGTGCAGCG CCTCCTTAAGAAGNNNNNNGAGCTCAAAAGTCATCTTGAGAAGTCAGCACAGTCCAAAGT CCCATCAGATCCCAACATATGGCTTCAGATGCGTGAGAACTTTGAGAAAATGATTCTGGC AGATCATGACTTTTGTGAAAAGCATGAGATCGAGTATATTTTGTGGCAGTTGCACTACAA AAGAATCGAGGAGTTCAGGAACCACATTAGTTCTGCAGGTTCAGCTGCATCTCAGAATGG TAAGAACAATGCCAACCCAGATCGAATCAAGAGAATTAAGTCGGCCTTCAGGAGCTTTCT TTCAGAAGCATCGGGCTTCTATCATGACTTGATGTTCAAGATCAAATCCAACTACGGCCT TCCTCTGGGTTACTTCTTGGAGTCTCCTGAGAATGCAAGCAGCCCTGACAAAAATGATAA GAGGACAGCTGATGCTAAGAAAGCCCTGATATCATGCCACCGTTGTCTCATATATCTGGG TGATTTGGCCCGCTATAAGGGTTTGTTTGGTGAAGCTGATTCTGCAAAACGTGAATATGC TGCGGCTTCTAATTACTACAAGGAGGCAGTTTCAATCTGCCCTTCCAGCGGCAATCCACA CCATCAGCTTGCAATATTAGCTTCTTACTCTGGCAATGAGGTAGTGGCTGTCTACAGATA CTTTCGAAGCTTAGCTGCAGACACTCCCTTCTGTACAGCACGGGACAACTTGATTCTTGC TTTTGAGAAGAATCGCCAGATCTTTGCACAGCTGCCAATCAACAACAAAGTTGCAATTGC TAGGACATTACCCCCACGGTCAGCTGGGAGGGGCAGAGGACGGGGCGAAATAAGGTTTCA GCCCAAGGATGTTAATACTGAAGCAGCTTCAAAAGAGCGAGATCAAAATATTCCTGATAC ACGGAAGTCCTTCTTTATGCGGTTTGTTAGGCTCAATGGAATTCTTTTCACAAAGACCAG TTTGGAAACATTTGAGGAACTGTTTGATGTGGTCATCAGTGATCTGAAAATTCTCCTCTC TTCTGGTCCAAATGAAGAGTTCCATTTTGGTTCTGATGCTGCAGACAACGCATTAGTTAT TGTTCGACTTGTTGCAATCCTTATATTCACAGTGCACAACGTGAAAAAGGAATCAGATAA CCAGTCATATGCTGAAATTGTCCAACGCAGGGTACTTCTTCAAAATGCATTTACAGCTGC TTTTGAGTTTGTTGGACATATTCTCAAAAGGTGCTCAGAGCTTCGTGACATTGCATCAAG TTTCTATCTTCCAGCCATTGTGGTCTACATCGAATGGCTCGCATGCCAACCGGAGTTAGC TGCTGATTCGGAGATGGACGAGAAGCATGCGAATGCTCGATCTTTCTTCTGGAACCAGTG TGTCTTGCTTATGAATAAGCTCATCCTTACAAACCTTGCGTCCATTGATGGTGATGATGA TGAGGCTTGCTTTTTTGATATGGGCGTGTATGAAGAGGGTGAAACTGGCAATCGACTTGC ATTGTGGGAAGATTATGAATTAAGGGGATTTTCCCCCTTGGTGCCTGCACATATTATCTT GGATTTCTCAAGCAAGCACACATTTGGAAGTGATGGTAGCACTAAGGAGAAGAAAGCACG GGCACAACGGATACTTTCTGCAGGGAAGGCTCTACTCAATTTTGTCCAGATTGATCAACT GAGAATATTTTTTGATCAATCTTCAAGAAAATTTGTTGTGGCCAAGGAGCCTCCTGTTTT TGAAGCTGCCATCTCTACTCATAGATCTCGCAATGCACCTGAACCAAATGTTGTTGAGCT GGCACATGAAATTGGTAACAAATTTGATGCAGTGGCAACTAATCTTGGAGCAATGCAGTC GGGAGTACAGTTGTGTTCCGAGGGAGAAGATGATGAAGAAATTGTTTTCAAACCTACAGT ATCTGAGAAGCTCCCGAAAGTACGTACCGAACTACCCGTTAATGGATATATTCAGCCTGT ACAAATGTCTACTGCTGGGTGGCCAACAATTGGCGGACCAGCTGCTAGTCAGAGTACTGC ATCTGCATCAGCTCCTGGAAACTGTAATGTAAGTGAGTCACTTCCCATGTCTTCTGGTGG TTGGGGTTTCAATGGCAGGCAAGAGGCTATTCCTAGCAATTCAATGTCGACAACTTACGA ATTTGTGCAGCCTGTTGAGATGCCTACTTCCAGCTGGGCAAGTAATGGTGCACCACTTGT TGGCTCTCCGAACACAATGCCTGCTTTCTCAGGTGCCATCTCTGATCCGCGTGTATCTGC AGCAATGGTTCCACATTTTGGCAGCCCAGATTATTCAAAATTGATCCTTGAACAAGAAAA ACTCTTAATGATGGGATTAAATAATGTTCATTTGTCTGGAAATGGATTCCCTGAGCAGAG GTTTCAGGGTGGATTGAGTGGATTACAGTCAATTGTATATTCTCCACATGTATCTGTTGA ATCTGGGCGCAACAATACAAGTTTGATGCATAATCAGGTGAAAGCGACTGAAGAAACCAT CCCATCCACTTCTGATTTAATTGTACCATCGGCAGCAGCATCTGGTGGGGTGACAATCAA TCTCACTGATGCACCTGTAGCTGTATCAAAGAAGAATCCTGTAAGTCGTCCATCAAGGCC CGTTGGTCCTCCTCCAGGATTTAACCACATCACTCCAAAACGCCATGATGATATTATGCC ATTTGAGAAGCTGCAGCACCAACAGATCGATGATTACAGCTGGCTGGATGGTTACCAGCC ATCAATGGAACATGTTCATAACTCAAAAGCTATTTATCTTGATGATGGGACTACCAGCAG TGCATTCACCACTCCCTTCCCTTTCCCTGGGAAACAGCAGGTTTCTGGGGTGCACACCCT AGGGGCCAGTGAGAAAACATGGCAAGATTTCCACCTTTTTGACCCTGCAAAGCAGAATAT GGTTCAAAACCACCAACAAATTAATCAGCACAGTGGTCAAGTGGCAGAAAAGCAGCCGGC AAAACCTATCGGATCTGGCCGTTATCTTGTGTGACGGAGTAACTTGTACCTGGATGGTTA CTACTGGAGTCGCTGAGGATCTGTTGGAGTAAGTGGCACAGCTTGATATACCTATTCAAT TCGGACCCATACCTGCAGCCCTTTCATAGTGTTAAATTTCTTTTGGAGAATGGTGGTCTT GGAAGCATAGCAAGTGCTGCTGTTAGGTTTGGGTGTGCCAGGTCTTCCGGGGCCAGTTGG AGGTTGGAGGGTGATTGATCTTTGGACTGTTTGATGGGGATGAATTGTACGCAGAACGCT TGGATGCTCAGGCATGAGGGGTTTGATCGAAGGAACTCGAATCCAGTCACTATAGGCGCG CTATGTGCTTCAGCTCTCATTGGATAAACTGTCTACCATACAGAGAATGGCCAGTGTGTG GCTGCTGTGGTGGAAACTAAATGCCGTTTAGTGTTGCTCGTGCTCATCTATGGCTACTAT GAATTTAGTTCGAGGAACAGTTAGCTTGCTGTCAAATTGGCCCTCGAAGTATACTACATC TACTTATGTTGCAATGTTTGCGATTTGCTGTTGGCAACAGCAGGTTATAATCCTCGTTTT GTGAGGAAGTTTACTTCGATATCACTATATGATTTGAACAATTTGTTTTGGTGTTTGTCC GGTACCAGAAAACATAACCCTTTTTGTGCAATAATTTTCTTGTTACCTTGTCGTATGCAA TGCCCGACTGAATACCAATATGGTTTCCTAATGAGCTTGCTTGTGTGTTGTTTTTTGGTT TCCATAATGTTGGGTCTTTTTGGACGAGTGCAGGGTTTAGATCCACTCTGGGGATTTAAG AATTCCTGTCTACCTGACGTTGCATTAGAACCCTGTATGCGGTAGGTGTATATGAGGTAT ATGTGTTCCCAAGCCAGTTA
Protein Sequence (1030 aa)
>BART1_0-u35643.001 1030 150831_barley_pseudomolecules MMTVPMDSTAVPPSRDLVQRLLKKXXELKSHLEKSAQSKVPSDPNIWLQMRENFEKMILA DHDFCEKHEIEYILWQLHYKRIEEFRNHISSAGSAASQNGKNNANPDRIKRIKSAFRSFL SEASGFYHDLMFKIKSNYGLPLGYFLESPENASSPDKNDKRTADAKKALISCHRCLIYLG DLARYKGLFGEADSAKREYAAASNYYKEAVSICPSSGNPHHQLAILASYSGNEVVAVYRY FRSLAADTPFCTARDNLILAFEKNRQIFAQLPINNKVAIARTLPPRSAGRGRGRGEIRFQ PKDVNTEAASKERDQNIPDTRKSFFMRFVRLNGILFTKTSLETFEELFDVVISDLKILLS SGPNEEFHFGSDAADNALVIVRLVAILIFTVHNVKKESDNQSYAEIVQRRVLLQNAFTAA FEFVGHILKRCSELRDIASSFYLPAIVVYIEWLACQPELAADSEMDEKHANARSFFWNQC VLLMNKLILTNLASIDGDDDEACFFDMGVYEEGETGNRLALWEDYELRGFSPLVPAHIIL DFSSKHTFGSDGSTKEKKARAQRILSAGKALLNFVQIDQLRIFFDQSSRKFVVAKEPPVF EAAISTHRSRNAPEPNVVELAHEIGNKFDAVATNLGAMQSGVQLCSEGEDDEEIVFKPTV SEKLPKVRTELPVNGYIQPVQMSTAGWPTIGGPAASQSTASASAPGNCNVSESLPMSSGG WGFNGRQEAIPSNSMSTTYEFVQPVEMPTSSWASNGAPLVGSPNTMPAFSGAISDPRVSA AMVPHFGSPDYSKLILEQEKLLMMGLNNVHLSGNGFPEQRFQGGLSGLQSIVYSPHVSVE SGRNNTSLMHNQVKATEETIPSTSDLIVPSAAASGGVTINLTDAPVAVSKKNPVSRPSRP VGPPPGFNHITPKRHDDIMPFEKLQHQQIDDYSWLDGYQPSMEHVHNSKAIYLDDGTTSS AFTTPFPFPGKQQVSGVHTLGASEKTWQDFHLFDPAKQNMVQNHQQINQHSGQVAEKQPA KPIGSGRYLV