- Transcript BART1_0-u33637.023
- Transcript IDBART1_0-u33637.023
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.023
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84473806 | 84473698 | + |
| chr5H | 2 | 84474019 | 84473884 | + |
| chr5H | 3 | 84476025 | 84475935 | + |
| chr5H | 4 | 84477467 | 84477275 | + |
| chr5H | 5 | 84477710 | 84477550 | + |
| chr5H | 6 | 84479142 | 84478592 | + |
| chr5H | 7 | 84480117 | 84479843 | + |
| chr5H | 8 | 84480655 | 84480237 | + |
| chr5H | 9 | 84480831 | 84480776 | + |
| chr5H | 10 | 84483365 | 84483169 | + |
| chr5H | 11 | 84483994 | 84483785 | + |
| chr5H | 12 | 84490180 | 84489767 | + |
| chr5H | 13 | 84491799 | 84491518 | + |
| chr5H | 14 | 84493103 | 84492482 | + |
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 | 0.0000000912659 | 7.12766 | 9.70566 |
| morex | ETI | 12.1555 | 16.4776 | 17.4156 |
| morex | LEA | 8.6906 | 4.03832 | 4.29517 |
| morex | EPI | 7.26106 | 8.56323 | 10.6014 |
| morex | ROO | 3.37257 | 4.21143 | 1.38909 |
| morex | ROO2 | 7.45287 | 7.81405 | 8.66438 |
| morex | NOD | 6.68102 | 7.55067 | 6.51798 |
| morex | RAC | 17.9648 | 17.2021 | 18.7597 |
| morex | INF1 | 23.8975 | 18.366 | 27.2904 |
| morex | INF2 | 31.5149 | 29.2763 | 25.1424 |
| morex | CAR5 | 7.47671 | 4.86107 | 8.42846 |
| morex | CAR15 | 4.95769 | 3.12556 | 4.2708 |
| morex | LEM | 14.8653 | 11.4586 | 15.0335 |
| morex | LOD | 19.7018 | 14.0507 | 12.3449 |
| morex | PAL | 11.0607 | 12.1521 | 17.4955 |
| morex | SEN | 2.77426 | 4.0977 | 3.19347 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g38740.1 | +2 | 0.0 | 1547 | 775/1136 (68%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.3 @ TAIR |
+2 | 0.0 | 763 | 455/1124 (40%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774833 REVERSE LENGTH=1388 |
| BRACH PP3 | Bradi1g15440.2.p | +2 | 0.0 | 1652 | 836/1137 (74%) | pacid=32792174 transcript=Bradi1g15440.2 locus=Bradi1g15440 ID=Bradi1g15440.2.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 (3716 bp)
>BART1_0-u33637.023 3716 150831_barley_pseudomolecules GGCAAATCTACATGGATCGTCTCGGAAAAATGCGAAGAAAGGGATATCAAAATTACACAA GGCATTCTTATATTGCACGGCTAATCTTGGAGTATGGCTAGCGGCAAAGGCTGCTGAGAT ACACTCAACAACTAACGAACAATTCTTATCTTTCTGGGGTGAAGAACTGGATAAGAATGT TGAAGGCTTTGTTAGAAGCTATAGTGAAGAAGTATACAGGGAACTCTCATGTTTTTCAGA GAGAGGTCATATTGGTAAAGATTTTGAAGCTGATTTGCAAGATGGGTTATTGACACCTAA AGTTCATTGTCTTGTTCAGTTTCTTCTGGAATACAGGCACATGCAAGACATAAGATGCAT TGTATTTGTCGAGAGAGTTGTTACAAGCATTGTGTTGGAGTCTCTCCTGTCCATTATCAA TCAAATGCCTGGGTGGATTATTAAACACATTGCAGGAAACAGACCTATGTTGCACAACCA GAGTAGAAATAAACAAACGGAAATTGTTGACGCCTTTAAAGGAGGAAAGGTACATATAAT TGTGACCACACAAGTATTGGAGGAGGGGCTGAATGTGCCAGGTTGTCACTTAGTAATTCG CTTTGATCCACCAACGACTGGGCGCAGCTTTATACAGTCACGTGGTCGAGCTCGGATGCC AAACTCTGAATATGTTTTACTTGTTAGAAGGGGGGATGCAGAGGCCCTCTCTAAGACAGT GAAGTTCCTTGCAAGCGGGCAAATGATGCGGGAAGCATCTCTGAAGCTTGCATCTACTAT GTGTCAACCACTAGAAAACACCTTGTTGCAGGGAGAATATTACCGTGTTGAATCTACTGG AGCAACCGTGACTATGAACTCAAGTGTCCAGTTGATTTATTTTTTCTGCTCGAAGCTCCC ATCTGATGAGTCTGTTTTATGTACCTTAAATTATGGTTTCCTTCTGTTTCATATCACAAA TCATTTTCTGGCACAAGTATCTTATGTTTCTCACGGATAATATCTCTGTCTCAGATACTT TACACCTCTTCCGAGATTCATTATTGACAAGGAACTACGTACTTGCACCTTGTACCTTCC CAATAGCAGCCCTGTGCAGACTGTTAATGCAGAAGGAGAAGTTTCTGCCCTCAAAAAGGC AGTTTGTCTTAAGGCCTGCCGAGAATTACACGCTGTCGGCGCCCTAACAGATTATCTGTT ACCAGAATTTGGTTTTCCATGTGAAGAAGAACCCGACATTGTTGTTGAGAAATACCAACA CGAGCAGCCTGTGTACTTCCCAGAGGAATTTGTGTACAATTGGTCATCCTTTTCTCGTCT TGGAATATATTATTGCTATAAGATTTCAGTAGAAGGGTGCTTGAAAACAACTTATTGTCC AAATGACATACTTCTAGCTGTGAAATGTGATTTGGGACCAGAGTTTGTCTCTACCTCACT TCAATTGTTTGGTGCGCAAGATAATGCTAGTCTTGCCATGAAATATGTGGGAATCATTCA TCTGAATCAAGAACAGGTAGTTATGGCCAGAAGGTTTCAGACTACTATTCTTTCTTTGCT TATTAATAAAGACCATTCTGAGGTCAGTAATGCTGTTAAATACTCCCATGAGATGCAAGT GTCCATTGGAATTGTCTACCTGCTGCTACCCTTAGTTTCTGGCAAAGTTGATTGGTGCAG TATCAAGTTCTCGACCTCGCAAGTGTATGTTGGCAGTAACAAGGATATCAGACATTGCCA TTCTTGTAAACAAGTTGATTTACTGCAAACAAAAGATGGTCCTCTGTGCAGATGCATGCT TGAAAGTTCCATTGTTTGCACCCCTCATAATAGCAAATTCTATGCTGTTAATGGGTTCCT TGACTTAAATTCCAAATCTCTTCTGCACCTTCGTGATGGCAGTGCCCTTACCTACATAAA CTATTTCAAGACTAGGAGTCCTGTTGAAGTGCGGAATTTCCTCCACAAGCGCCATTATAA AAATAAAAAAGAATCGTGCACTTCACATGGTGTTGAGTTGCCACCTGAGCTCTGCAGACT AGTCATGTCACCAGTCTCTACTAATACTTTGTACAGCTTCTCGATTATTCCTTCTGTAAT GTACCGCATCCAGTGTCTGCTTCTTTCTGCAAAGTTGAAAGATCAACTGGGCCCAATAAT GCAGCAGTTTGCCATACCAGCTCTGAAGATTCTAGAAGCAGTAACAACCAAGGAATGCCA AGAGGAATTTTCACAGGAATCATTAGAAACCCTTGGGGATTCTTTCCTCAAGTACATCGC CACGCAACATCTGTATGTCAAACACAAGCTTCAGCATGAGGGGACATTAACCAAGATGAA GAAAAACTTAATCTCGAATGCAGCTCTATGCCAGCTGGCCTGCAACAACAATCTTGTGGG TTACATTCAAGGGGAAGAGTTTAACCCAAAAGGTTGGATCATTCCAGGGCTTGGTTATGA CATGTGTGGTAACAGCAAATTTTCCTTTTTAAGCTCCAATGATATGCACACTTTGAGGAA AATGTCTGTTAGAAGTAAGAGAATAGCAGATACAGTTGAGGCATTGATTGGAGCCTACCT TGGTGCTGCGGGAGAACAGGCTGCATTTGTTTTCCTAAAATCATTAGGATTGGATATAGG ATTTCACAGCACTATTCCACTTGAAAGGAAGATTGTATTAAAATCTGAAAAGTTCATCAA CGTGAGAAGTTTGGAAATGATTCTTGGTTATGAGTTCAAGGATACTTCATTGTTGGTGGA AGCATTGACACATGGGTCATACCAGACTGCTGGCACTACTGCATGCTATCAGAGGCTTGA GTTTCTCGGAGACGCTGTGTTGGACCATCTCTTCACTATATATTTCTACAATAAGTACCC TGAATGTACTCCAGAATTGTTGACAGATCTTAGATCTGCTTCCGTTAACAACAATTGCTA TGCGCATGCAGCTGCTAAAGCAGGACTAAACAAGCACATTCTTCATTCGTCATTGCCATT GCACGGAAGGATGGCTTACTACTTTGAGAATTTTACTAAGCACCGATTTACAGGTCCATC ACATGGTTGGGAAGCTGGCATTGGTCTACCCAAGGTTCTTGGGGATGTTATTGAATCATT AGCCGGTGCCATTTATCTTGACAGCAAGTATGACAAAGAGGTGGTTTGGAGAAGCATGAA AAAGCTATTGGAGCCTCTTGCGACACCGGAGACGGTTGAGCGTGACCCAGTGAAACTGCT GCAGGAATTTTGTGATCGCAGGTCTTATAGCAGGTCTTACACAAAGGTCCAGAAAGATGG AGTGTCTTCGGTGGTTGGGGAGGTACAGGTAGAAGGGACTACCTACTCAGCAACTGGAAC TGGCCCTGATAAGGTTGTCGCAAAAAAGCTTGCAGCGAAGTTGCTGCTAGAAGATCTGAA GGCTATAGTACCATGACACGCTTGCATTTGCAGATGATGCAATACTGTATAGCTCCTTCC GACTTCACTTGTATTGTGACTAGCCTGTAGGTAGCCTTTTGAAGTTTTTGTGGGAGTATG CGTGTACTTGACAAATGTGCAGCTCAATCATTGCTTGTGAATATTCAGACTATTGAACTG CACATCTGTGAAGTACGGGCATCGTCTCTCAGAACCATGGTACAGACGATAATGCTACAG TATCCTTAGACTTCTACTTGTACAGTTGTAAGCACAATCTTGAGTGGAAAGCTGGA
Protein Sequence (652 aa)
>BART1_0-u33637.023 652 150831_barley_pseudomolecules MKYVGIIHLNQEQVVMARRFQTTILSLLINKDHSEVSNAVKYSHEMQVSIGIVYLLLPLV SGKVDWCSIKFSTSQVYVGSNKDIRHCHSCKQVDLLQTKDGPLCRCMLESSIVCTPHNSK FYAVNGFLDLNSKSLLHLRDGSALTYINYFKTRSPVEVRNFLHKRHYKNKKESCTSHGVE LPPELCRLVMSPVSTNTLYSFSIIPSVMYRIQCLLLSAKLKDQLGPIMQQFAIPALKILE AVTTKECQEEFSQESLETLGDSFLKYIATQHLYVKHKLQHEGTLTKMKKNLISNAALCQL ACNNNLVGYIQGEEFNPKGWIIPGLGYDMCGNSKFSFLSSNDMHTLRKMSVRSKRIADTV EALIGAYLGAAGEQAAFVFLKSLGLDIGFHSTIPLERKIVLKSEKFINVRSLEMILGYEF KDTSLLVEALTHGSYQTAGTTACYQRLEFLGDAVLDHLFTIYFYNKYPECTPELLTDLRS ASVNNNCYAHAAAKAGLNKHILHSSLPLHGRMAYYFENFTKHRFTGPSHGWEAGIGLPKV LGDVIESLAGAIYLDSKYDKEVVWRSMKKLLEPLATPETVERDPVKLLQEFCDRRSYSRS YTKVQKDGVSSVVGEVQVEGTTYSATGTGPDKVVAKKLAAKLLLEDLKAIVP