- Transcript BART1_0-u10056.002
- Transcript IDBART1_0-u10056.002
- Gene IDBART1_0-u10056
Barley RTD
Exon Structure of BART1_0-u10056.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 196197765 | 196196752 | - |
| chr2H | 2 | 196198594 | 196198527 | - |
| chr2H | 3 | 196200357 | 196200244 | - |
| chr2H | 4 | 196200943 | 196200894 | - |
| chr2H | 5 | 196201575 | 196201168 | - |
| chr2H | 6 | 196202024 | 196201954 | - |
| chr2H | 7 | 196203345 | 196203171 | - |
| chr2H | 8 | 196204297 | 196204201 | - |
| chr2H | 9 | 196205297 | 196204456 | - |
| chr2H | 10 | 196205912 | 196205811 | - |
| chr2H | 11 | 196206098 | 196206017 | - |
| chr2H | 12 | 196206604 | 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 | 2.68225 | 11.285 | 12.4344 |
| morex | ETI | 14.7962 | 20.3059 | 21.5745 |
| morex | LEA | 11.4973 | 4.02518 | 13.4488 |
| morex | EPI | 7.7957 | 6.8809 | 7.90324 |
| morex | ROO | 9.57713 | 13.1608 | 0.114476 |
| morex | ROO2 | 9.17376 | 13.1578 | 11.8854 |
| morex | NOD | 3.94987 | 10.1506 | 9.55951 |
| morex | RAC | 21.5462 | 21.1581 | 23.053 |
| morex | INF1 | 20.9815 | 21.2131 | 18.4513 |
| morex | INF2 | 32.5822 | 39.5411 | 27.537 |
| morex | CAR5 | 43.1752 | 41.0273 | 43.7291 |
| morex | CAR15 | 16.2433 | 18.3392 | 20.528 |
| morex | LEM | 18.9921 | 18.9959 | 17.0459 |
| morex | LOD | 27.0599 | 18.1448 | 13.6882 |
| morex | PAL | 18.7919 | 21.3105 | 19.4943 |
| morex | SEN | 9.01857 | 12.9465 | 8.37797 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g37610.1 | +2 | 0.0 | 1278 | 661/894 (74%) | protein|B3 DNA binding domain containing protein, putative, expressed |
| TAIR PP10 | AT4G32010 @ ARAPORT AT4G32010.1 @ TAIR |
+2 | 2e-139 | 439 | 235/445 (53%) | Symbols: HSL1, HSI2-L1, VAL2 | HSI2-like 1 | chr4:15481231-15484897 FORWARD LENGTH=780 |
| BRACH PP3 | Bradi1g24720.1.p | +2 | 0.0 | 1355 | 711/903 (79%) | 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 (3215 bp)
>BART1_0-u10056.002 3215 150831_barley_pseudomolecules NNNNNNNNCGTCCAAGCAGCCGCAGCAGCAGCACCAACAGCAGCAGCAGCAGGGCCCTTC GCCCGCCTCGCTCCAGCAGCGGCCCAGGATCTGCTTCAACGCGCACTGCAAGGACCCCAA ATCCGAGGGCGCGCGCCACCGCGGCTGGCGCCTCCGCTCCGGCGACTACGCCGAGCTCTG CGACCGATGCTATGGTTCGTTCGAGCATGGGACCTTCTGCGAGACGTTCCACTCGGAGGT GGCCGGATGGAGGAAATGCGAAGCGTGCGGGAAGAGGCTACATTGTGGGTGCATCGTCTC CGTCCATGCGTATGCGCTGCTCGACGCCGGCGGAGTTGACTGCATCCTATGTGCTCGCAA GTCGTATGTGGCAATGGCACCAAGTCAGATGTGGTCAACTCCTACTGTGCATATGCCTCA AAATGTTGCTGACAGAAAGGACAGTTATGTAAAGAGTTGGAGACCTCCTGCGGGCCAGAT TTCAAGTCAGTGGCGACAGAATCACCAGCTGTGGAACATGTCCAGTATACAGACGGACTT GCAGCAACGTCTAGCTTATGAGTTTGATAGGCCAAGTGGCAGTGAAAAATTACCTCCAGG GCGCACTTTTATTCATGCCCAGGAAAAGAAATCCGATGACATGCATGACAGACCAACGAC ACCTGCCGGCATGGGCCAGATTATAAGGGACAGATATGCCAATGGGCTCGGACAGCAAAC AAACATGGATCCGACACACTCCTCTACGCCCTACCAGAGAGAAGGACCAAATCAAAATAG CCTTCATGATCCTAGTCACCATGTAGGAGAAAGTGACCCTTTGTCTTCAAGGAAAGGGAT AGTTTCAGATGGTGGTTCTACTGCATCTACTGGCTTTAAGCTTGATCCACATCATCCATC CATTCTAAAGGATGATGCGGCATCAACCCTGCCGACAATGGGTGGCTACACTATCACTAA TTATCCACCGGTACCTGGACGAAGCGACCATCTCAGAATCATACCTAATAATCCGCAACA ACCACCCACCACGGTGCCCGTCTCAGTAGTGCAGAAACAGTTCTATTCCCATAGTGTCAT TGAGCCCGACTACCAAGCGCAATTCCGTAATGGAAAGCCCAGAATGGAGTCCAGAATGGA TGCAAAGGCGAGATCTCAATTACTTCCCCGCTACTGGCCTAGAATAACAGATAAAGAGCT ACAGCACTTATCGGGAGATTCGAATTCTGTTATTACTCCTTTGTTCGAGAAAATGTTAAG TGCCAGTGATGCTGGTCGGATTGGTCGTTTGGTGTTGCCAAAGAAATGCGCCGAGGCATA CTTCCCCCCAATCTCTCAGCCAGAAGGACTTCCCTTAAAAGTTCAGGATGCCAGTGGTAA GGAATGGGTGTTCCAGTTCCGTTTCTGGCCCAATAATAACAGCAGGATGTATGTATTGGA GGGTGTCACACCTTGCATTCAGTCGATGCACTTACAAGCGGGCGATACAGTAAGTTTCAG CCGAATAGATCCAGAAGGGAAGCTGGTCATGGGATTCAGAAAGACAAAGACTCAAGAACA GATATTCCGCCAGGAAGAACCAACAAAGCCTGCAAATGCTGCCCCAAATCTTCCAGATGT GAATGTTAATGTCACCGCTCCAGATTCTAGTCCAAATTCTGCGTTGGCGCGGCCAAATAA AGTCAACACAGAGAACAAAGATACTAGCCCTGTGGAACAAGCAGCTGCCTGTAAAATGGA GAAAACTGGAGTAGCACAAAAGGAAGGGCAGGGAACTGTTCGCTCATCCCCTGGACCTGT CAAGAGAAAAGCAACATCTCTTGGTTCGAAGATTAAACGGTTCCGGATTGATAACGAGGA ATCTATGGAATTGAAGATAACATGGGAGGAGGCTCAAGAATTGCTTCGACCTCCTCTGAA GGCCCCATCGGTTGTTATTGTTGATGGCCATGAGTTTGAGGAATATGAGGAGCCACCAGT ACTTGGGAGGAAGACATATTTTGTTACTGACCAATCAGGTGAGAATCATCAATGGGCTCA GTGTGAGGATTGTTCCAAATGGCGGAAACTGCCAGTAGACGCCCTTTTGCCCTCTAAGTG GACCTGTTCTGACAATAAATGGGATCCTGAAAGGACGACTTGTGTCTCTCCACAAGAAGC AAGCATGGAGCAACTTGCAGAGTTGATTCCTATAAAAGCAGGTGCTGCAAAAAAGGCTAA ACTGAAGATGGAAACTGACAGTATTGATGTTTCGGATGGGCTGGACACTCTGGCAAACCT TGCTATTCTTGGTGAGGGTGAATCTCTCCCTTCCCAGCCAACTACAAAGCACCCCCGCCA TCGCCCTGGCTGCTCGTGCATTGTGTGCATTCAGCCTCCTAGTGGGAAGGGCCCAAAGCA CAAGCAGACGTGCACCTGCAATGTATGTATGACGGTGCGCCGTCGTTTTAGGACACTGAT GCTTCGGCGTGAGAAGCGTGCGTCTGAGAAAGAATCGGAAGAGCCGCCTCGCAAGAAAGA GCAAGGCCAGTCGAGCGAGTCGATTCCACAAGATGTGCTGCCGGCTAGCACCAGTCCTAC TAGCACTCCCCAAAACGTGAACGGAAATGGTGAAGATGCGGAAGAAACCGTGGAGCATAG CATGGTATCCTCTCCTATGAAGAACCAGATTGACCTGAACATTCAGCCTGAACGGGAAGA CGAGCAGTCACCAAAATCAGATGCGGTCGGTGCAATGAGACTTCCCCGAGAGAACGCAGC CTAGTGCGGCTCACCGTAGTGGTGATAGATAACACCAGATTGAAAACTGTCTATACCAAT GGAGATATGCGGCGCCTGGAGTTGTAGTGTAGGTGTTATTACTTTTTCCATACAAAAGGA TCTAGTTTCCTTCCTGTTGCGGGGGACATATTTCCCAGTGTTGATGCTATATCGTGTATA CCATAGATCAGTCGGTTGGTGCTGTAGGCAGGCCCTGTTGTAGGTGTTGCCTACCCTGTA TGTATGTGTATTGTAAGGGCAGCGCTCTTCGGCACCATGTAAGCGGCATGCATAATTTAT TCATGTATCGGCTCAACCATCCAAACTAGTAATGCTTCTAATGTCAAAACACAGATAAGG TGTCCTTGTTCCGGTTGGCAAAGAAGCGTTATCCTAGATCGTCCCCTGATGGGTGCTATT TTTTCTCATATTTAGCTACTCGTCGATCGTCCCCA
Protein Sequence (920 aa)
>BART1_0-u10056.002 920 150831_barley_pseudomolecules XXXSKQPQQQHQQQQQQGPSPASLQQRPRICFNAHCKDPKSEGARHRGWRLRSGDYAELC DRCYGSFEHGTFCETFHSEVAGWRKCEACGKRLHCGCIVSVHAYALLDAGGVDCILCARK SYVAMAPSQMWSTPTVHMPQNVADRKDSYVKSWRPPAGQISSQWRQNHQLWNMSSIQTDL QQRLAYEFDRPSGSEKLPPGRTFIHAQEKKSDDMHDRPTTPAGMGQIIRDRYANGLGQQT NMDPTHSSTPYQREGPNQNSLHDPSHHVGESDPLSSRKGIVSDGGSTASTGFKLDPHHPS ILKDDAASTLPTMGGYTITNYPPVPGRSDHLRIIPNNPQQPPTTVPVSVVQKQFYSHSVI EPDYQAQFRNGKPRMESRMDAKARSQLLPRYWPRITDKELQHLSGDSNSVITPLFEKMLS ASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDASGKEWVFQFRFWPNNNSRMYVLE GVTPCIQSMHLQAGDTVSFSRIDPEGKLVMGFRKTKTQEQIFRQEEPTKPANAAPNLPDV NVNVTAPDSSPNSALARPNKVNTENKDTSPVEQAAACKMEKTGVAQKEGQGTVRSSPGPV KRKATSLGSKIKRFRIDNEESMELKITWEEAQELLRPPLKAPSVVIVDGHEFEEYEEPPV LGRKTYFVTDQSGENHQWAQCEDCSKWRKLPVDALLPSKWTCSDNKWDPERTTCVSPQEA SMEQLAELIPIKAGAAKKAKLKMETDSIDVSDGLDTLANLAILGEGESLPSQPTTKHPRH RPGCSCIVCIQPPSGKGPKHKQTCTCNVCMTVRRRFRTLMLRREKRASEKESEEPPRKKE QGQSSESIPQDVLPASTSPTSTPQNVNGNGEDAEETVEHSMVSSPMKNQIDLNIQPERED EQSPKSDAVGAMRLPRENAA