- Transcript BART1_0-u10056.006
- Transcript IDBART1_0-u10056.006
- Gene IDBART1_0-u10056
Barley RTD
Exon Structure of BART1_0-u10056.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 196197765 | 196196803 | - |
| chr2H | 2 | 196198594 | 196198527 | - |
| chr2H | 3 | 196200943 | 196200894 | - |
| chr2H | 4 | 196201575 | 196201168 | - |
| chr2H | 5 | 196202024 | 196201954 | - |
| chr2H | 6 | 196203345 | 196203171 | - |
| chr2H | 7 | 196204297 | 196204201 | - |
| chr2H | 8 | 196205297 | 196204456 | - |
| chr2H | 9 | 196205912 | 196205811 | - |
| chr2H | 10 | 196206098 | 196206017 | - |
| chr2H | 11 | 196206597 | 196206413 | - |
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 | 5.45702 | 2.44207 |
| morex | ETI | 0.278798 | 1.67329 | 0.682304 |
| morex | LEA | 0.635811 | 1.84911 | 0.419855 |
| morex | EPI | 1.9687 | 3.88072 | 0.874472 |
| morex | ROO | 0 | 0.584355 | 1.91514 |
| morex | ROO2 | 1.92913 | 0.602669 | 1.44871 |
| morex | NOD | 2.25747 | 1.57561 | 0.472845 |
| morex | RAC | 9.47402 | 10.495 | 8.03868 |
| morex | INF1 | 4.41443 | 5.25886 | 7.26264 |
| morex | INF2 | 3.16738 | 6.86398 | 2.14209 |
| morex | CAR5 | 7.50408 | 5.92122 | 5.05309 |
| morex | CAR15 | 0.0243032 | 0.163913 | 0.0355408 |
| morex | LEM | 1.33131 | 4.28974 | 4.31436 |
| morex | LOD | 4.5146 | 5.52751 | 4.16073 |
| morex | PAL | 3.65223 | 3.9184 | 4.23677 |
| morex | SEN | 1.16347 | 1.98059 | 1.74517 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g37610.1 | +1 | 0.0 | 1177 | 624/894 (70%) | protein|B3 DNA binding domain containing protein, putative, expressed |
| TAIR PP10 | AT2G30470 @ ARAPORT AT2G30470.1 @ TAIR |
+1 | 7e-104 | 343 | 206/459 (45%) | Symbols: HSI2, VAL1 | high-level expression of sugar-inducible gene 2 | chr2:12980904-12984724 REVERSE LENGTH=790 |
| BRACH PP3 | Bradi1g24720.1.p | +1 | 0.0 | 1253 | 658/903 (73%) | pacid=32795970 transcript=Bradi1g24720.1 locus=Bradi1g24720 ID=Bradi1g24720.1.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 (3043 bp)
>BART1_0-u10056.006 3043 150831_barley_pseudomolecules NCGTCCAAGCAGCCGCAGCAGCAGCACCAACAGCAGCAGCAGCAGGGCCCTTCGCCCGCC TCGCTCCAGCAGCGGCCCAGGATCTGCTTCAACGCGCACTGCAAGGACCCCAAATCCGAG GGCGCGCGCCACCGCGGCTGGCGCCTCCGCTCCGGCGACTACGCCGAGCTCTGCGACCGA TGCTATGGTTCGTTCGAGCATGGGACCTTCTGCGAGACGTTCCACTCGGAGGTGGCCGGA TGGAGGAAATGCGAAGCGTGCGGGAAGAGGCTACATTGTGGGTGCATCGTCTCCGTCCAT GCGTATGCGCTGCTCGACGCCGGCGGAGTTGACTGCATCCTATGTGCTCGCAAGTCGTAT GTGGCAATGGCACCAAGTCAGATGTGGTCAACTCCTACTGTGCATATGCCTCAAAATGTT GCTGACAGAAAGGACAGTTATGTAAAGAGTTGGAGACCTCCTGCGGGCCAGATTTCAAGT CAGTGGCGACAGAATCACCAGCTGTGGAACATGTCCAGTATACAGACGGACTTGCAGCAA CGTCTAGCTTATGAGTTTGATAGGCCAAGTGGCAGTGAAAAATTACCTCCAGGGCGCACT TTTATTCATGCCCAGGAAAAGAAATCCGATGACATGCATGACAGACCAACGACACCTGCC GGCATGGGCCAGATTATAAGGGACAGATATGCCAATGGGCTCGGACAGCAAACAAACATG GATCCGACACACTCCTCTACGCCCTACCAGAGAGAAGGACCAAATCAAAATAGCCTTCAT GATCCTAGTCACCATGTAGGAGAAAGTGACCCTTTGTCTTCAAGGAAAGGGATAGTTTCA GATGGTGGTTCTACTGCATCTACTGGCTTTAAGCTTGATCCACATCATCCATCCATTCTA AAGGATGATGCGGCATCAACCCTGCCGACAATGGGTGGCTACACTATCACTAATTATCCA CCGGTACCTGGACGAAGCGACCATCTCAGAATCATACCTAATAATCCGCAACAACCACCC ACCACGGTGCCCGTCTCAGTAGTGCAGAAACAGTTCTATTCCCATAGTGTCATTGAGCCC GACTACCAAGCGCAATTCCGTAATGGAAAGCCCAGAATGGAGTCCAGAATGGATGCAAAG GCGAGATCTCAATTACTTCCCCGCTACTGGCCTAGAATAACAGATAAAGAGCTACAGCAC TTATCGGGAGATTCGAATTCTGTTATTACTCCTTTGTTCGAGAAAATGTTAAGTGCCAGT GATGCTGGTCGGATTGGTCGTTTGGTGTTGCCAAAGAAATGCGCCGAGGCATACTTCCCC CCAATCTCTCAGCCAGAAGGACTTCCCTTAAAAGTTCAGGATGCCAGTGGTAAGGAATGG GTGTTCCAGTTCCGTTTCTGGCCCAATAATAACAGCAGGATGTATGTATTGGAGGGTGTC ACACCTTGCATTCAGTCGATGCACTTACAAGCGGGCGATACAGTAAGTTTCAGCCGAATA GATCCAGAAGGGAAGCTGGTCATGGGATTCAGAAAGACAAAGACTCAAGAACAGATATTC CGCCAGGAAGAACCAACAAAGCCTGCAAATGCTGCCCCAAATCTTCCAGATGTGAATGTT AATGTCACCGCTCCAGATTCTAGTCCAAATTCTGCGTTGGCGCGGCCAAATAAAGTCAAC ACAGAGAACAAAGATACTAGCCCTGTGGAACAAGCAGCTGCCTGTAAAATGGAGAAAACT GGAGTAGCACAAAAGGAAGGGCAGGGAACTGTTCGCTCATCCCCTGGACCTGTCAAGAGA AAAGCAACATCTCTTGGTTCGAAGATTAAACGGTTCCGGATTGATAACGAGGAATCTATG GAATTGAAGATAACATGGGAGGAGGCTCAAGAATTGCTTCGACCTCCTCTGAAGGCCCCA TCGGTTGTTATTGTTGATGGCCATGAGTTTGAGGAATATGAGGAGCCACCAGTACTTGGG AGGAAGACATATTTTGTTACTGACCAATCAGGGACGACTTGTGTCTCTCCACAAGAAGCA AGCATGGAGCAACTTGCAGAGTTGATTCCTATAAAAGCAGGTGCTGCAAAAAAGGCTAAA CTGAAGATGGAAACTGACAGTATTGATGTTTCGGATGGGCTGGACACTCTGGCAAACCTT GCTATTCTTGGTGAGGGTGAATCTCTCCCTTCCCAGCCAACTACAAAGCACCCCCGCCAT CGCCCTGGCTGCTCGTGCATTGTGTGCATTCAGCCTCCTAGTGGGAAGGGCCCAAAGCAC AAGCAGACGTGCACCTGCAATGTATGTATGACGGTGCGCCGTCGTTTTAGGACACTGATG CTTCGGCGTGAGAAGCGTGCGTCTGAGAAAGAATCGGAAGAGCCGCCTCGCAAGAAAGAG CAAGGCCAGTCGAGCGAGTCGATTCCACAAGATGTGCTGCCGGCTAGCACCAGTCCTACT AGCACTCCCCAAAACGTGAACGGAAATGGTGAAGATGCGGAAGAAACCGTGGAGCATAGC ATGGTATCCTCTCCTATGAAGAACCAGATTGACCTGAACATTCAGCCTGAACGGGAAGAC GAGCAGTCACCAAAATCAGATGCGGTCGGTGCAATGAGACTTCCCCGAGAGAACGCAGCC TAGTGCGGCTCACCGTAGTGGTGATAGATAACACCAGATTGAAAACTGTCTATACCAATG GAGATATGCGGCGCCTGGAGTTGTAGTGTAGGTGTTATTACTTTTTCCATACAAAAGGAT CTAGTTTCCTTCCTGTTGCGGGGGACATATTTCCCAGTGTTGATGCTATATCGTGTATAC CATAGATCAGTCGGTTGGTGCTGTAGGCAGGCCCTGTTGTAGGTGTTGCCTACCCTGTAT GTATGTGTATTGTAAGGGCAGCGCTCTTCGGCACCATGTAAGCGGCATGCATAATTTATT CATGTATCGGCTCAACCATCCAAACTAGTAATGCTTCTAATGTCAAAACACAGATAAGGT GTCCTTGTTCCGGTTGGCAAAGAAGCGTTATCCTAGATCGTCC
Protein Sequence (880 aa)
>BART1_0-u10056.006 880 150831_barley_pseudomolecules XSKQPQQQHQQQQQQGPSPASLQQRPRICFNAHCKDPKSEGARHRGWRLRSGDYAELCDR CYGSFEHGTFCETFHSEVAGWRKCEACGKRLHCGCIVSVHAYALLDAGGVDCILCARKSY VAMAPSQMWSTPTVHMPQNVADRKDSYVKSWRPPAGQISSQWRQNHQLWNMSSIQTDLQQ RLAYEFDRPSGSEKLPPGRTFIHAQEKKSDDMHDRPTTPAGMGQIIRDRYANGLGQQTNM DPTHSSTPYQREGPNQNSLHDPSHHVGESDPLSSRKGIVSDGGSTASTGFKLDPHHPSIL KDDAASTLPTMGGYTITNYPPVPGRSDHLRIIPNNPQQPPTTVPVSVVQKQFYSHSVIEP DYQAQFRNGKPRMESRMDAKARSQLLPRYWPRITDKELQHLSGDSNSVITPLFEKMLSAS DAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDASGKEWVFQFRFWPNNNSRMYVLEGV TPCIQSMHLQAGDTVSFSRIDPEGKLVMGFRKTKTQEQIFRQEEPTKPANAAPNLPDVNV NVTAPDSSPNSALARPNKVNTENKDTSPVEQAAACKMEKTGVAQKEGQGTVRSSPGPVKR KATSLGSKIKRFRIDNEESMELKITWEEAQELLRPPLKAPSVVIVDGHEFEEYEEPPVLG RKTYFVTDQSGTTCVSPQEASMEQLAELIPIKAGAAKKAKLKMETDSIDVSDGLDTLANL AILGEGESLPSQPTTKHPRHRPGCSCIVCIQPPSGKGPKHKQTCTCNVCMTVRRRFRTLM LRREKRASEKESEEPPRKKEQGQSSESIPQDVLPASTSPTSTPQNVNGNGEDAEETVEHS MVSSPMKNQIDLNIQPEREDEQSPKSDAVGAMRLPRENAA