- Transcript BART1_0-u39718.008
- Transcript IDBART1_0-u39718.008
- Gene IDBART1_0-u39718
Barley RTD
Exon Structure of BART1_0-u39718.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 615390084 | 615388615 | - |
| chr5H | 2 | 615390389 | 615390163 | - |
| chr5H | 3 | 615390625 | 615390551 | - |
| chr5H | 4 | 615390934 | 615390818 | - |
| chr5H | 5 | 615392416 | 615392324 | - |
| chr5H | 6 | 615394192 | 615394034 | - |
| chr5H | 7 | 615394470 | 615394336 | - |
| chr5H | 8 | 615394733 | 615394575 | - |
| chr5H | 9 | 615397849 | 615397737 | - |
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 | 0.311447 | 1.03336 | 0.601735 |
| morex | ETI | 0.00712145 | 0.395696 | 0.0000773347 |
| morex | LEA | 1.36593 | 0 | 0 |
| morex | EPI | 0.17863 | 0 | 0.0753913 |
| morex | ROO | 0.884922 | 0.897884 | 0 |
| morex | ROO2 | 0.710373 | 0.915509 | 0.00000000667563 |
| morex | NOD | 0.33149 | 0.497016 | 0.274602 |
| morex | RAC | 1.19609 | 1.11576 | 1.42584 |
| morex | INF1 | 1.0769 | 0.530484 | 0.721096 |
| morex | INF2 | 1.0725 | 1.43669 | 1.88293 |
| morex | CAR5 | 1.5793 | 0.542207 | 0.369919 |
| morex | CAR15 | 0 | 0.0269779 | 0.223262 |
| morex | LEM | 0.290513 | 0.112465 | 0.00743289 |
| morex | LOD | 0.382837 | 1.82531 | 1.27015 |
| morex | PAL | 0.547397 | 0.498362 | 0.918872 |
| morex | SEN | 0.46335 | 0.476875 | 0.13735 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g35150.1 | +3 | 1e-144 | 443 | 228/295 (77%) | protein|splicing factor U2AF, putative, expressed |
| TAIR PP10 | AT1G10320 @ ARAPORT AT1G10320.1 @ TAIR |
+3 | 1e-131 | 411 | 203/301 (67%) | Symbols: | Zinc finger C-x8-C-x5-C-x3-H type family protein | chr1:3384164-3388373 REVERSE LENGTH=757 |
| BRACH PP3 | Bradi3g45900.1.p | +3 | 0.0 | 623 | 321/376 (85%) | 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 (2548 bp)
>BART1_0-u39718.008 2548 150831_barley_pseudomolecules CTGCGTCCTTCAGGGAGTTGCCTCTGAAACAAAAGAGATCGTGCCCATTCAGATAACATT TACTCAACAGGCATCTAAGAGTAGCAAACTAAAGGGCTGTCTGACAACATAATTATAACG ATGACCACCGAGACGAGACAGAAGAAGATGGGGAGTGGGAGTATGTTGAAGATGGACCAG CAGAGATCATATGGCAAGGAAATGAGATCATTGTGAAGAAGAAAAAGGTCAAAATACCAA AGAAGGCAGAGGCTAAACCACTAAGTCAAGAGGAAGAGAGACCTACATCAAATCCGCTGC CACCTCAGTCTGTAGCTGTTGATTCTCAGAGGAGAGAACCTTCCTTGTCTGCTCGAGAAC TACTTGAGAAAGTTGCTCAAGAGACTCCAAATTTCGGAACTGAACAGGATAAGGCCCATT GCCCATTTTACCTCAAAACAGCAGCTTGCCGCTTTGGAGTGCGCTGCAGCAGAGTTCACT TCTACCCTGACAAATCATGCACATTGCTCATGAAAAACATGTATAATGGTCCGGGCCTTG TTTTGGAACAAGATGAAGGGCTTGAGTTTACAGACGAAGAGATTGAACAGAGCTATGAAG AATTTTATGAAGACGTGCACACAGAATTTCTGAAATTTGGTGAACTTGTCAACTTCAAGG TATGTAGAAATGGATCGTTCCATCTTCGAGGAAATGTCTATGTGCATTATAAAGCTTTGG ATTCAGCTCTTCTTGCCTACAACAGCATGAATGGTCGATATTTTGCTGGGAAGCAGATAA CATGCGAGTTTGTTGCTCTGACGAAATGGAAGTCTGCGATCTGTGGTGAGTACATGAGGT CAAGATTCAAGACATGTTCACATGGAGTTGCTTGTAATTTCATTCATTGCTTTCGTAATC CTGGTGGAGATTATGAGTGGGCTGATTGGGACAATCCTCCACCTAAATACTGGACTCGGA AGATGGCTGCTCTGTTTGGACCCTCAGATGATGCTGTTTTTGACAAGGCGAGTGATGCCC CAGATTTCGAACGGTTACACAGTTCAGACAGGAAGAGACTGAGAAGTTCTGATGGCAGGT ATATTTCAAGTAGACATAGGGATGGAGATGCACATAAACGGCACTCATCAAGAGTTTTTT CACATTCGAAGCAAGAACAGAGCAATTATATCATGAAATATGGGCATACTCGACATAGTA GAGAACCATCTACAGCAAAAAAGCAACGAGGCCATGAGATTGAAGATGATATTGGCAGAT ACTGTTCGCCCGTGGAAAATGAAAGAGTGNNNNNNNNNNNNNNNNNNAAAGAGTGTCCCA AACACACAAGCGTGAAGAGAAACATAGAGATGGCCATGGCGATGGAGCACGTGGAGACAA TGGTAAAATCAAGTCCAGGAAGCACAGATCTGAACAGCACGAAAGTCTGGAGTCTGGATG TTCTGATTGGCCTTCAGAATTTGCTGATGCAGGCACGAGCAGAAGTCCTTCATGCAGCAA GTCCACCAACAGGTACAGTAATCACAATAGGAGTCGGGGGCAATCCTTGGATGATTCCAA TCTTGAAAGGGGCTACTCCACTGCGGACAAATCATCAGGGAAAGCGCACATTGCCAAAAG TAGCTCGAGACATTACGTAGAAGATGACTCTTATGGTGAGAAAGGTAGTGGAAGAGACAA ATCTGGAAAGCACAGTGATCATTGTGATGACCCTGATGATAGATGGCTAGCAACAACTAG TGACGTTGATTCAGATGGAGAAACTCAATTCCTGAGATCAAGCAGTGGAATTGGTAAAGG TGGAAAGAATGATAATGCTCCTCGAGACGAGGATGATCGTTGTCAAAGGTCCAGCAGTAG GTCTGCTAGGTCAAGAGCGAACGAGACGAAGAGCAGTAGGAAGAGGAAGAAGCATCACAG TGAAATCAGGAAGAATAGCGATAGTGATGACAGTCCGTCAGACTCTAGTGACATTAGGGA TTCGAGCTCACATGCATGGAGGAGTCGATCAAGAAGCAGTGAGGAAGATCTCTCTTTACA CAGACGGAGGAAGGGTCGCCTAGGTCATGATTCGTGATGCTGCTGAAATTTCTGATCATT TGGTCACTAGACTGTCGACTTCGGTTTCTGGACGATCAAATGTTGTATAGATGCCAGTAG CTTATGCAGCAGTCCTTGCCAGCCTTGCTTTCTTCTTCACTTTGCCGATAAGGTTCTTTT TCCGGATAGAGGTTTCTTGCAAAGCAGAAGGCTTGTAATAGTTTTGCTAATTTAGAGTTG TTTACATCTCACCATTGGTTCCGCCCTGGAATTCCGACTTTTTATGCCCATCACACTTGG TAGTAAGAGCATCTCCAACACATTTTCTGAAGTTACTCCCAATAATTCTGGGTATTGGTA CGCTTGCAACTAGTCCCATCACCTAAGCTTAGCTCCCAATAATTTGTGTACATATACCTT GTTTTTTTATTCAAACCCTGCTGTTTCTAGTGCAAACATTTCAAATGCATAATATTATTT TTAATTCAAATTCAGGCCATGCACAAGA
Protein Sequence (376 aa)
>BART1_0-u39718.008 376 150831_barley_pseudomolecules MKNMYNGPGLVLEQDEGLEFTDEEIEQSYEEFYEDVHTEFLKFGELVNFKVCRNGSFHLR GNVYVHYKALDSALLAYNSMNGRYFAGKQITCEFVALTKWKSAICGEYMRSRFKTCSHGV ACNFIHCFRNPGGDYEWADWDNPPPKYWTRKMAALFGPSDDAVFDKASDAPDFERLHSSD RKRLRSSDGRYISSRHRDGDAHKRHSSRVFSHSKQEQSNYIMKYGHTRHSREPSTAKKQR GHEIEDDIGRYCSPVENERVXXXXXXKECPKHTSVKRNIEMAMAMEHVETMVKSSPGSTD LNSTKVWSLDVLIGLQNLLMQARAEVLHAASPPTGTVITIGVGGNPWMIPILKGATPLRT NHQGKRTLPKVARDIT