- Transcript BART1_0-u39718.005
- Transcript IDBART1_0-u39718.005
- Gene IDBART1_0-u39718
Barley RTD
Exon Structure of BART1_0-u39718.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 615390084 | 615388573 | - |
| chr5H | 2 | 615390389 | 615390163 | - |
| chr5H | 3 | 615390625 | 615390551 | - |
| chr5H | 4 | 615390934 | 615390818 | - |
| chr5H | 5 | 615392416 | 615392324 | - |
| chr5H | 6 | 615392680 | 615392630 | - |
| chr5H | 7 | 615392901 | 615392820 | - |
| chr5H | 8 | 615394192 | 615394034 | - |
| chr5H | 9 | 615394470 | 615394336 | - |
| chr5H | 10 | 615394733 | 615394575 | - |
| chr5H | 11 | 615397673 | 615395625 | - |
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 | 0.43208 | 0.280592 |
| morex | ETI | 0.137124 | 0.100631 | 0.264472 |
| morex | LEA | 0.401161 | 0.204656 | 0.28848 |
| morex | EPI | 0 | 1.37064 | 0.751492 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.465122 | 0.371369 | 0.453115 |
| morex | NOD | 0.339651 | 0.350257 | 0.427347 |
| morex | RAC | 0.103941 | 0.348985 | 0.0236905 |
| morex | INF1 | 0.399269 | 0 | 0.345769 |
| morex | INF2 | 0.486959 | 0.63713 | 0.234643 |
| morex | CAR5 | 0.29896 | 0.0501509 | 0.370445 |
| morex | CAR15 | 0.258296 | 0.0516056 | 0.0761188 |
| morex | LEM | 0.468117 | 0 | 0.233487 |
| morex | LOD | 0.501578 | 0.337304 | 0.313997 |
| morex | PAL | 0.0303709 | 0.314928 | 0.200763 |
| morex | SEN | 0.209312 | 0.471613 | 0.253513 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g35150.1 | +2 | 5e-109 | 330 | 165/225 (73%) | protein|splicing factor U2AF, putative, expressed |
| TAIR PP10 | AT1G10320 @ ARAPORT AT1G10320.1 @ TAIR |
+2 | 5e-66 | 239 | 109/143 (76%) | Symbols: | Zinc finger C-x8-C-x5-C-x3-H type family protein | chr1:3384164-3388373 REVERSE LENGTH=757 |
| BRACH PP3 | Bradi3g45900.1.p | +2 | 1e-159 | 395 | 197/242 (81%) | pacid=32822846 transcript=Bradi3g45900.1 locus=Bradi3g45900 ID=Bradi3g45900.1.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 (4659 bp)
>BART1_0-u39718.005 4659 150831_barley_pseudomolecules TACTCTGTGACCAATATCTGCTCAAACAGAACTTTCACCATATCAATCCCACGCTTAACC CTCAGTAGATTCCTCGTATGGCTCCCCGGCTGCCTAACAGTGCCCTTCTGAATGTCAAGC TCAACCATGGAGGGCAATGTCGAAATCGTCTTGGATGCCTCCAGTAGATCATTAACCTGC AGCCACGTAAGACAAAGTAGTCAGACAAGATCGCCAAACAAAAGCCTTGAAAAAGGGGAT GCTACGATTAACTAGGTAATCGATGGCCTGGCCCCAAGACAGTCATCAAACACGCATGAG TATATGAGGTTTTTGTAACAAGATAGCATGTGAAATCCGAAATGGCTGAACATTTTGTTT GCTATATAAGCAGTAGTACTAAAATAAGCGCAGAAGTAGATTGGAACTTCCAACACCTCA AGCATACATCAGAGCAAGCATCTCACAATACTAGCTGAAATAGATAACCAGATCCTTATG TGCACACAATAGTTCCTGGCTTGATCAGGTTGAAAATTTATGAGACCGTCTCGCCCTAAA CAAGTCCAGGGGATCACCACAATTACCTTAAAAACAGAGATGTATACAATTAAAGGAGCA GTACTAACTCAAGTGCAGAAGTGAATAGGATTCCCTACCCCTGAAGCGTTCACCGCAACA ACCATAGCACACAGTTAGCAAAATTAGACAGTCCTAACCCGATGAAGCACCCAATAATTG CTGCTTGATCCAGTTCAGAAATTGACAGAACATTTCACCGAAACATCCTATCCTCAAACT GAAGTAGATCAACACAATCACCTCACCACATGGAGTATGCACAGCTATGCAGGGTAGCAA TCGAAAACGAATTCAAACAGAACTTGCCAAGTCGATCTGGCTGAGAATTTCAGATCATTT CGCCCCAAACCTTTCTCAGCTTCACACAAACCAATCAATGCCCCGGAAATCACCAGAAAT TTTACCACACACAAGCACAACGAAGCAGCATACCGAACAACCGACTCGCCCTAAGCAGCC GAGGGCCCCAACCGGGGGAGGAATCGCGGGACGCGAGCTAGAGCAGAGCAGGTCGCGGGG GAGGGGAGGGGGGCAGAGCAGGGGCGGGGCTTGCCTTGGCGACGTAGTCCATCTCGGCGA ACTTGAAGGCGATGCCGAGGCAGCCGAAGAGGACGGAGACGTTGGAGCAGGCGCGGGAGA AGTCCCCCGCCGCCATCGCGGGCTGCTGCTGCTGCTTGGCGATGGCCGCGAGCTGCTCGA ACGACGCGCCGATCCGCCGCAGCGGCTTGTCCGCCTCGTTGGACCCCATCGGCCGGTCTC CGCCGCCGCCGGCGTCCGCCGCGCTTGGAGGTTCTAGAGCTTGGGTGGCGTCGGCGTCTG GGCTGATGAGCTGTGCTCTTTTTTTTTCCCTCTCCCCCCCTCTCTCTGTGGTGAGATGCC TCGTTCTTTTGGTGGTTGTACGCGTTGTTGTGTGAAGAGGGCGACGGCGATGACGGCGAG GTTTTGGGGTCGGCCGGTCCTCTGATGGGCCTGAAAGTGGGCTCGGGCCATCTTGGACCA TTCTCTTCTAGGCCCATGCGATTCTAAGAAAAACAAAATGCAAGGCCCATGAAACGTAAG TACGTTTATTTGGGGGCCTTCGATAGACAAAGCCCTAAAACACTTTTCTGAAAGAAAAAA AACCAAGAGGCCGAGGGGGTGGATCGAGGAGCTTCCGTCGGAGCGCCCATGTCCACGGCG GCCGCTGATCTCCCGGCGGCGTCTACGAGGAGCGAGAGGCGGAAGGAGCGGAAGAAGCAG CGCCGCCGGCGCGCGCGTAGGGAGGCGGCGGCGGCCGCGCGGGCTGCGGCAGAGGCGCTC GCCGCCGACCCAGAGGAGGGGCGCCGCCTCCGAGAGCTCGAGGAGGCCGAGGCCGACGCG TCCGACCGCGCCCGCCGCGCCTTTGAGGACGCCGAGCGCCGATGGCTCGAGAAGGCCGCC TCGCGTGCCGCCGAGGAGGCGGCTGCGGAAGAAGAGGCGTGTGCCGCCGAAGCTTCCACG CGCGATAAGTATAACGATGACCACCGAGACGAGACAGAAGAAGATGGGGAGTGGGAGTAT GTTGAAGATGGACCAGCAGAGATCATATGGCAAGGAAATGAGATCATTGTGAAGAAGAAA AAGGTCAAAATACCAAAGAAGGCAGAGGCTAAACCACTAAGTCAAGAGGAAGAGAGACCT ACATCAAATCCGCTGCCACCTCAGTCTGTAGCTGTTGATTCTCAGAGGAGAGAACCTTCC TTGTCTGCTCGAGAACTACTTGAGAAAGTTGCTCAAGAGACTCCAAATTTCGGAACTGAA CAGGATAAGGCCCATTGCCCATTTTACCTCAAAACAGCAGCTTGCCGCTTTGGAGTGCGC TGCAGCAGAGTTCACTTCTACCCTGACAAATCATGCACATTGCTCATGAAAAACATGTAT AATGGTCCGGGCCTTGTTTTGGAACAAGATGAAGGGCTTGAGAATTCCCTCTCGAGGCAA GCAGTGACCAACCACCTAGTTGGTCTCATTTGATTGGAGACGCCCTGAACTTTCATCTGC TACCTACTTGTGAGATGTTCTTGTATTGGACGTGTTGATGATCATTAGGTGACAGTTTAC AGACGAAGAGATTGAACAGAGCTATGAAGAATTTTATGAAGACGTGCACACAGAATTTCT GAAATTTGGTGAACTTGTCAACTTCAAGGTATGTAGAAATGGATCGTTCCATCTTCGAGG AAATGTCTATGTGCATTATAAAGCTTTGGATTCAGCTCTTCTTGCCTACAACAGCATGAA TGGTCGATATTTTGCTGGGAAGCAGATAACATGCGAGTTTGTTGCTCTGACGAAATGGAA GTCTGCGATCTGTGGTGAGTACATGAGGTCAAGATTCAAGACATGTTCACATGGAGTTGC TTGTAATTTCATTCATTGCTTTCGTAATCCTGGTGGAGATTATGAGTGGGCTGATTGGGA CAATCCTCCACCTAAATACTGGACTCGGAAGATGGCTGCTCTGTTTGGACCCTCAGATGA TGCTGTTTTTGACAAGGCGAGTGATGCCCCAGATTTCGAACGGTTACACAGTTCAGACAG GAAGAGACTGAGAAGTTCTGATGGCAGGTATATTTCAAGTAGACATAGGGATGGAGATGC ACATAAACGGCACTCATCAAGAGTTTTTTCACATTCGAAGCAAGAACAGAGCAATTATAT CATGAAATATGGGCATACTCGACATAGTAGAGAACCATCTACAGCAAAAAAGCAACGAGG CCATGAGATTGAAGATGATATTGGCAGATACTGTTCGCCCGTGGAAAATGAAAGAGTGNN NNNNNNNNNNNNNNNNAAAGAGTGTCCCAAACACACAAGCGTGAAGAGAAACATAGAGAT GGCCATGGCGATGGAGCACGTGGAGACAATGGTAAAATCAAGTCCAGGAAGCACAGATCT GAACAGCACGAAAGTCTGGAGTCTGGATGTTCTGATTGGCCTTCAGAATTTGCTGATGCA GGCACGAGCAGAAGTCCTTCATGCAGCAAGTCCACCAACAGGTACAGTAATCACAATAGG AGTCGGGGGCAATCCTTGGATGATTCCAATCTTGAAAGGGGCTACTCCACTGCGGACAAA TCATCAGGGAAAGCGCACATTGCCAAAAGTAGCTCGAGACATTACGTAGAAGATGACTCT TATGGTGAGAAAGGTAGTGGAAGAGACAAATCTGGAAAGCACAGTGATCATTGTGATGAC CCTGATGATAGATGGCTAGCAACAACTAGTGACGTTGATTCAGATGGAGAAACTCAATTC CTGAGATCAAGCAGTGGAATTGGTAAAGGTGGAAAGAATGATAATGCTCCTCGAGACGAG GATGATCGTTGTCAAAGGTCCAGCAGTAGGTCTGCTAGGTCAAGAGCGAACGAGACGAAG AGCAGTAGGAAGAGGAAGAAGCATCACAGTGAAATCAGGAAGAATAGCGATAGTGATGAC AGTCCGTCAGACTCTAGTGACATTAGGGATTCGAGCTCACATGCATGGAGGAGTCGATCA AGAAGCAGTGAGGAAGATCTCTCTTTACACAGACGGAGGAAGGGTCGCCTAGGTCATGAT TCGTGATGCTGCTGAAATTTCTGATCATTTGGTCACTAGACTGTCGACTTCGGTTTCTGG ACGATCAAATGTTGTATAGATGCCAGTAGCTTATGCAGCAGTCCTTGCCAGCCTTGCTTT CTTCTTCACTTTGCCGATAAGGTTCTTTTTCCGGATAGAGGTTTCTTGCAAAGCAGAAGG CTTGTAATAGTTTTGCTAATTTAGAGTTGTTTACATCTCACCATTGGTTCCGCCCTGGAA TTCCGACTTTTTATGCCCATCACACTTGGTAGTAAGAGCATCTCCAACACATTTTCTGAA GTTACTCCCAATAATTCTGGGTATTGGTACGCTTGCAACTAGTCCCATCACCTAAGCTTA GCTCCCAATAATTTGTGTACATATACCTTGTTTTTTTATTCAAACCCTGCTGTTTCTAGT GCAAACATTTCAAATGCATAATATTATTTTTAATTCAAATTCAGGCCATGCACAAGAATT CAAACGGTAGGAGTGCTCCCTCCCTCTCTTCATCATCGC
Protein Sequence (297 aa)
>BART1_0-u39718.005 297 150831_barley_pseudomolecules MNGRYFAGKQITCEFVALTKWKSAICGEYMRSRFKTCSHGVACNFIHCFRNPGGDYEWAD WDNPPPKYWTRKMAALFGPSDDAVFDKASDAPDFERLHSSDRKRLRSSDGRYISSRHRDG DAHKRHSSRVFSHSKQEQSNYIMKYGHTRHSREPSTAKKQRGHEIEDDIGRYCSPVENER VXXXXXXKECPKHTSVKRNIEMAMAMEHVETMVKSSPGSTDLNSTKVWSLDVLIGLQNLL MQARAEVLHAASPPTGTVITIGVGGNPWMIPILKGATPLRTNHQGKRTLPKVARDIT