- Transcript BART1_0-u39718.003
- Transcript IDBART1_0-u39718.003
- Gene IDBART1_0-u39718
Barley RTD
Exon Structure of BART1_0-u39718.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 615388627 | 615388570 | - |
| chr5H | 2 | 615390084 | 615388766 | - |
| chr5H | 3 | 615390389 | 615390163 | - |
| chr5H | 4 | 615390625 | 615390551 | - |
| chr5H | 5 | 615390934 | 615390818 | - |
| chr5H | 6 | 615392416 | 615392324 | - |
| chr5H | 7 | 615392680 | 615392630 | - |
| chr5H | 8 | 615394192 | 615392820 | - |
| chr5H | 9 | 615394470 | 615394336 | - |
| chr5H | 10 | 615394733 | 615394575 | - |
| chr5H | 11 | 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 | 0.370935 | 5.58816 | 3.19856 |
| morex | ETI | 8.45107 | 6.22141 | 6.69268 |
| morex | LEA | 4.24407 | 3.2188 | 2.84345 |
| morex | EPI | 1.86675 | 3.2005 | 3.44607 |
| morex | ROO | 1.25192 | 2.40864 | 0.707289 |
| morex | ROO2 | 3.05521 | 2.42261 | 2.27845 |
| morex | NOD | 2.16402 | 2.24966 | 2.22023 |
| morex | RAC | 6.25998 | 6.00842 | 7.57947 |
| morex | INF1 | 12.4568 | 10.7655 | 12.1522 |
| morex | INF2 | 23.609 | 22.3349 | 23.5525 |
| morex | CAR5 | 9.6924 | 10.9968 | 9.54089 |
| morex | CAR15 | 9.15369 | 8.91073 | 8.55498 |
| morex | LEM | 4.38359 | 3.80829 | 5.14189 |
| morex | LOD | 6.67208 | 5.10101 | 5.78476 |
| morex | PAL | 4.45929 | 3.61698 | 5.00144 |
| morex | SEN | 4.35805 | 5.78147 | 2.12674 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g35150.1 | +1 | 4e-109 | 330 | 165/225 (73%) | protein|splicing factor U2AF, putative, expressed |
| TAIR PP10 | AT1G10320 @ ARAPORT AT1G10320.1 @ TAIR |
+1 | 3e-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 | +1 | 8e-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 (3740 bp)
>BART1_0-u39718.003 3740 150831_barley_pseudomolecules CGCGTCCGACCGCGCCCGCCGCGCCTTTGAGGACGCCGAGCGCCGATGGCTCGAGAAGGC CGCCTCGCGTGCCGCCGAGGAGGCGGCTGCGGAAGAAGAGGCGTGTGCCGCCGAAGCTTC CACGCGCGATAAGTATAACGATGACCACCGAGACGAGACAGAAGAAGATGGGGAGTGGGA GTATGTTGAAGATGGACCAGCAGAGATCATATGGCAAGGAAATGAGATCATTGTGAAGAA GAAAAAGGTCAAAATACCAAAGAAGGCAGAGGCTAAACCACTAAGTCAAGAGGAAGAGAG ACCTACATCAAATCCGCTGCCACCTCAGTCTGTAGCTGTTGATTCTCAGAGGAGAGAACC TTCCTTGTCTGCTCGAGAACTACTTGAGAAAGTTGCTCAAGAGACTCCAAATTTCGGAAC TGAACAGGATAAGGCCCATTGCCCATTTTACCTCAAAACAGCAGCTTGCCGCTTTGGAGT GCGCTGCAGCAGAGTTCACTTCTACCCTGACAAATCATGCACATTGCTCATGAAAAACAT GTATAATGGTCCGGGCCTTGTTTTGGAACAAGATGAAGGGCTTGAGGTTTGTTAGAGGAC AATCCCTTGCAAACAAATTCGTATCCTGAACTATTCTGTCTTTTGGCACAACCTTTTAGT ATCCTGAACTCATTACAATACTTATTCCCGACCTACTCATTGTTTTAAGATTATACTCCC TCGCTTTAGGTTTGTTAGGCTCATCTCAAAAAATCTGAATTGTTAGTTTTGGAAGGCCCC TTGCTTTAGGAATAGGCAAATATTAAGTACAGCCACATTAATTTCTATCTAAATTTGGTC CTCAATGTGGGGTCAACCAATGCATGAAGGAGGAGAGTGACCATGCATGCTGCATCAGTA CATGGTCCATCACTTAATTAGGTACTCCTTGGTTACAGTGATTTTTTGGATGAGCCAAAT GGATTAAGCTTAAACTTTGTGCTGTACAATGAATAACCGTAGGTAGAAACTAGCATAATG CCCGTGCGTTGCTATGAATCCATAAAAAGACCACTGTCTTAGGAAATCGTCAAAGGATGA TGGTGTCTTGGGGTTGTTGCATGGTTCACGATTGGAAAGAGAGCAAAAATGTAACGAAAG ATCGTGTTGCAGTCCTTGAAAAATCAAGCGACCATAGTAGGTACTTTGCAAGATTTATAG TGAGATAACATTTTGAATTTGAAGCATAAGAGGATGGGCATGAGTAAGTTGAATGCACAA GATCGTGAAATTGCAATTTGTTTGCTCTCTTCTGCTATGATATAGAGCTGTAAGAATTGA TTGGGCAGAGACTAAAATCGAGACCATGATTTTGAGTTGGAGTTCCATACTTGCATTTAC AATTTGCATTTTTGTCAGAGTATTATTCTCACATTATGGTAGGTGTATTTGTTTACTTGG GATAGGTCTCACACCAAGTGGAAGTAACATTTGTTTTTTAAAGGTTGCTAGTCTCACATA TGAGTACAAGTGCACTTGTTTATTTCCGTGGCCCCACATCTGAACTCACCACCAACTCCA ATATTTATAAGTAGGAAAGATAACTGGTTACTTTAATTCTTTTGTAAATTCCCTTCCAAG TGTTAAAATATGCCTGTTGCTTTTTAGAAATTTTGCTTGATCTTCTGGCTACTCTCAGAC CTGTGACATAATGCATGTTCATTGATGCATTCTCCAAGAATTCCCTCTCGAGGCAAGCAG TGACCAACCACCTAGTTGGTCTCATTTGATTGGAGACGCCCTGAACTTTCATCTGCTACC TACTTGTGAGATGTTCTTGTATTGGACGTGTTGATGATCATTAGGTGACAGTTTACAGAC GAAGAGATTGAACAGAGCTATGAAGAATTTTATGAAGACGTGCACACAGAATTTCTGAAA TTTGGTGAACTTGTCAACTTCAAGGTATGTAGAAATGGATCGTTCCATCTTCGAGGAAAT GTCTATGTGCATTATAAAGCTTTGGATTCAGCTCTTCTTGCCTACAACAGCATGAATGGT CGATATTTTGCTGGGAAGCAGATAACATGCGAGTTTGTTGCTCTGACGAAATGGAAGTCT GCGATCTGTGGTGAGTACATGAGGTCAAGATTCAAGACATGTTCACATGGAGTTGCTTGT AATTTCATTCATTGCTTTCGTAATCCTGGTGGAGATTATGAGTGGGCTGATTGGGACAAT CCTCCACCTAAATACTGGACTCGGAAGATGGCTGCTCTGTTTGGACCCTCAGATGATGCT GTTTTTGACAAGGCGAGTGATGCCCCAGATTTCGAACGGTTACACAGTTCAGACAGGAAG AGACTGAGAAGTTCTGATGGCAGGTATATTTCAAGTAGACATAGGGATGGAGATGCACAT AAACGGCACTCATCAAGAGTTTTTTCACATTCGAAGCAAGAACAGAGCAATTATATCATG AAATATGGGCATACTCGACATAGTAGAGAACCATCTACAGCAAAAAAGCAACGAGGCCAT GAGATTGAAGATGATATTGGCAGATACTGTTCGCCCGTGGAAAATGAAAGAGTGNNNNNN NNNNNNNNNNNNAAAGAGTGTCCCAAACACACAAGCGTGAAGAGAAACATAGAGATGGCC ATGGCGATGGAGCACGTGGAGACAATGGTAAAATCAAGTCCAGGAAGCACAGATCTGAAC AGCACGAAAGTCTGGAGTCTGGATGTTCTGATTGGCCTTCAGAATTTGCTGATGCAGGCA CGAGCAGAAGTCCTTCATGCAGCAAGTCCACCAACAGGTACAGTAATCACAATAGGAGTC GGGGGCAATCCTTGGATGATTCCAATCTTGAAAGGGGCTACTCCACTGCGGACAAATCAT CAGGGAAAGCGCACATTGCCAAAAGTAGCTCGAGACATTACGTAGAAGATGACTCTTATG GTGAGAAAGGTAGTGGAAGAGACAAATCTGGAAAGCACAGTGATCATTGTGATGACCCTG ATGATAGATGGCTAGCAACAACTAGTGACGTTGATTCAGATGGAGAAACTCAATTCCTGA GATCAAGCAGTGGAATTGGTAAAGGTGGAAAGAATGATAATGCTCCTCGAGACGAGGATG ATCGTTGTCAAAGGTCCAGCAGTAGGTCTGCTAGGTCAAGAGCGAACGAGACGAAGAGCA GTAGGAAGAGGAAGAAGCATCACAGTGAAATCAGGAAGAATAGCGATAGTGATGACAGTC CGTCAGACTCTAGTGACATTAGGGATTCGAGCTCACATGCATGGAGGAGTCGATCAAGAA GCAGTGAGGAAGATCTCTCTTTACACAGACGGAGGAAGGGTCGCCTAGGTCATGATTCGT GATGCTGCTGAAATTTCTGATCATTTGGTCACTAGACTGTCGACTTCGGTTTCTGGACGA TCAAATGTTGTATAGATGCCAGTAGCTTATGCAGCAGTCCTTGCCAGCCTTGCTTTCTTC TTCACTTTGCCGATAAGGTTCTTTTTCCGGATAGAGGTTTCTTGCAAAGCAGAAGGCTTG TAATAGTTTTGCTAATTTAGAGTTGTTTACATCTCACCATTGGTTCCGCCCTGGAATTCC GACTTTTTATGCCCATCACACTTGGTAGTAAGAGCATCTCCAACACATTTTCTGAAGTTA CTCCCAATAATTCTGGGTATTGGCCATGCACAAGAATTCAAACGGTAGGAGTGCTCCCTC CCTCTCTTCATCATCGCCCT
Protein Sequence (297 aa)
>BART1_0-u39718.003 297 150831_barley_pseudomolecules MNGRYFAGKQITCEFVALTKWKSAICGEYMRSRFKTCSHGVACNFIHCFRNPGGDYEWAD WDNPPPKYWTRKMAALFGPSDDAVFDKASDAPDFERLHSSDRKRLRSSDGRYISSRHRDG DAHKRHSSRVFSHSKQEQSNYIMKYGHTRHSREPSTAKKQRGHEIEDDIGRYCSPVENER VXXXXXXKECPKHTSVKRNIEMAMAMEHVETMVKSSPGSTDLNSTKVWSLDVLIGLQNLL MQARAEVLHAASPPTGTVITIGVGGNPWMIPILKGATPLRTNHQGKRTLPKVARDIT