- Transcript BART1_0-u39718.006
- Transcript IDBART1_0-u39718.006
- Gene IDBART1_0-u39718
Barley RTD
Exon Structure of BART1_0-u39718.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 615388627 | 615388592 | - |
| chr5H | 2 | 615390084 | 615388766 | - |
| chr5H | 3 | 615390389 | 615390163 | - |
| chr5H | 4 | 615390625 | 615390551 | - |
| chr5H | 5 | 615390934 | 615390818 | - |
| chr5H | 6 | 615392416 | 615392324 | - |
| chr5H | 7 | 615394192 | 615394034 | - |
| chr5H | 8 | 615394470 | 615394336 | - |
| chr5H | 9 | 615394733 | 615394575 | - |
| chr5H | 10 | 615395757 | 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 | 0 |
| morex | ETI | 0.21331 | 0 | 0.202821 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.00000000227212 | 0.000821322 | 0.714843 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.0286775 | 1.0257 |
| morex | NOD | 0 | 0.125259 | 0 |
| morex | RAC | 0 | 0.0770679 | 0.144102 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0.123776 | 0 | 0 |
| morex | CAR15 | 0 | 0.685585 | 0.000000982265 |
| morex | LEM | 0.00000344137 | 0.338355 | 0.676393 |
| morex | LOD | 0.0120508 | 0 | 0.000000000343676 |
| morex | PAL | 0.000349337 | 0 | 0 |
| morex | SEN | 0 | 0.00276123 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g35150.1 | +2 | 8e-145 | 443 | 228/295 (77%) | protein|splicing factor U2AF, putative, expressed |
| TAIR PP10 | AT1G10320 @ ARAPORT AT1G10320.1 @ TAIR |
+2 | 2e-132 | 412 | 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 | +2 | 0.0 | 625 | 334/397 (84%) | 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 (2453 bp)
>BART1_0-u39718.006 2453 150831_barley_pseudomolecules CGCGTCCGACCGCGCCCGCCGCGCCTTTGAGGACGCCGAGCGCCGATGGCTCGAGAAGGC CGCCTCGCGTGCCGCCGAGGAGGCGGCTGCGGAAGAAGAGGCGTGTGCCGCCGAAGCTTC CACGCGCGATAAGTATAACGATGACCACCGAGACGAGACAGAAGAAGATGGGGAGTGGGA GTATGTTGAAGATGGACCAGCAGAGATCATATGGCAAGGAAATGAGATCATTGTGAAGAA GAAAAAGGTCAAAATACCAAAGAAGGCAGAGGCTAAACCACTAAGTCAAGAGGAAGAGAG ACCTACATCAAATCCGCTGCCACCTCAGTCTGTAGCTGTTGATTCTCAGAGGAGAGAACC TTCCTTGTCTGCTCGAGAACTACTTGAGAAAGTTGCTCAAGAGACTCCAAATTTCGGAAC TGAACAGGATAAGGCCCATTGCCCATTTTACCTCAAAACAGCAGCTTGCCGCTTTGGAGT GCGCTGCAGCAGAGTTCACTTCTACCCTGACAAATCATGCACATTGCTCATGAAAAACAT GTATAATGGTCCGGGCCTTGTTTTGGAACAAGATGAAGGGCTTGAGTTTACAGACGAAGA GATTGAACAGAGCTATGAAGAATTTTATGAAGACGTGCACACAGAATTTCTGAAATTTGG TGAACTTGTCAACTTCAAGGTATGTAGAAATGGATCGTTCCATCTTCGAGGAAATGTCTA TGTGCATTATAAAGCTTTGGATTCAGCTCTTCTTGCCTACAACAGCATGAATGGTCGATA TTTTGCTGGGAAGCAGATAACATGCGAGTTTGTTGCTCTGACGAAATGGAAGTCTGCGAT CTGTGGTGAGTACATGAGGTCAAGATTCAAGACATGTTCACATGGAGTTGCTTGTAATTT CATTCATTGCTTTCGTAATCCTGGTGGAGATTATGAGTGGGCTGATTGGGACAATCCTCC ACCTAAATACTGGACTCGGAAGATGGCTGCTCTGTTTGGACCCTCAGATGATGCTGTTTT TGACAAGGCGAGTGATGCCCCAGATTTCGAACGGTTACACAGTTCAGACAGGAAGAGACT GAGAAGTTCTGATGGCAGGTATATTTCAAGTAGACATAGGGATGGAGATGCACATAAACG GCACTCATCAAGAGTTTTTTCACATTCGAAGCAAGAACAGAGCAATTATATCATGAAATA TGGGCATACTCGACATAGTAGAGAACCATCTACAGCAAAAAAGCAACGAGGCCATGAGAT TGAAGATGATATTGGCAGATACTGTTCGCCCGTGGAAAATGAAAGAGTGNNNNNNNNNNN NNNNNNNAAAGAGTGTCCCAAACACACAAGCGTGAAGAGAAACATAGAGATGGCCATGGC GATGGAGCACGTGGAGACAATGGTAAAATCAAGTCCAGGAAGCACAGATCTGAACAGCAC GAAAGTCTGGAGTCTGGATGTTCTGATTGGCCTTCAGAATTTGCTGATGCAGGCACGAGC AGAAGTCCTTCATGCAGCAAGTCCACCAACAGGTACAGTAATCACAATAGGAGTCGGGGG CAATCCTTGGATGATTCCAATCTTGAAAGGGGCTACTCCACTGCGGACAAATCATCAGGG AAAGCGCACATTGCCAAAAGTAGCTCGAGACATTACGTAGAAGATGACTCTTATGGTGAG AAAGGTAGTGGAAGAGACAAATCTGGAAAGCACAGTGATCATTGTGATGACCCTGATGAT AGATGGCTAGCAACAACTAGTGACGTTGATTCAGATGGAGAAACTCAATTCCTGAGATCA AGCAGTGGAATTGGTAAAGGTGGAAAGAATGATAATGCTCCTCGAGACGAGGATGATCGT TGTCAAAGGTCCAGCAGTAGGTCTGCTAGGTCAAGAGCGAACGAGACGAAGAGCAGTAGG AAGAGGAAGAAGCATCACAGTGAAATCAGGAAGAATAGCGATAGTGATGACAGTCCGTCA GACTCTAGTGACATTAGGGATTCGAGCTCACATGCATGGAGGAGTCGATCAAGAAGCAGT GAGGAAGATCTCTCTTTACACAGACGGAGGAAGGGTCGCCTAGGTCATGATTCGTGATGC TGCTGAAATTTCTGATCATTTGGTCACTAGACTGTCGACTTCGGTTTCTGGACGATCAAA TGTTGTATAGATGCCAGTAGCTTATGCAGCAGTCCTTGCCAGCCTTGCTTTCTTCTTCAC TTTGCCGATAAGGTTCTTTTTCCGGATAGAGGTTTCTTGCAAAGCAGAAGGCTTGTAATA GTTTTGCTAATTTAGAGTTGTTTACATCTCACCATTGGTTCCGCCCTGGAATTCCGACTT TTTATGCCCATCACACTTGGTAGTAAGAGCATCTCCAACACATTTTCTGAAGTTACTCCC AATAATTCTGGGTATTGGCCATGCACAAGAATTCAAACGGTAGGAGTGCTCCC
Protein Sequence (552 aa)
>BART1_0-u39718.006 552 150831_barley_pseudomolecules ASDRARRAFEDAERRWLEKAASRAAEEAAAEEEACAAEASTRDKYNDDHRDETEEDGEWE YVEDGPAEIIWQGNEIIVKKKKVKIPKKAEAKPLSQEEERPTSNPLPPQSVAVDSQRREP SLSARELLEKVAQETPNFGTEQDKAHCPFYLKTAACRFGVRCSRVHFYPDKSCTLLMKNM YNGPGLVLEQDEGLEFTDEEIEQSYEEFYEDVHTEFLKFGELVNFKVCRNGSFHLRGNVY VHYKALDSALLAYNSMNGRYFAGKQITCEFVALTKWKSAICGEYMRSRFKTCSHGVACNF IHCFRNPGGDYEWADWDNPPPKYWTRKMAALFGPSDDAVFDKASDAPDFERLHSSDRKRL RSSDGRYISSRHRDGDAHKRHSSRVFSHSKQEQSNYIMKYGHTRHSREPSTAKKQRGHEI EDDIGRYCSPVENERVXXXXXXKECPKHTSVKRNIEMAMAMEHVETMVKSSPGSTDLNST KVWSLDVLIGLQNLLMQARAEVLHAASPPTGTVITIGVGGNPWMIPILKGATPLRTNHQG KRTLPKVARDIT