- Transcript BART1_0-u10056.004
- Transcript IDBART1_0-u10056.004
- Gene IDBART1_0-u10056
Barley RTD
Exon Structure of BART1_0-u10056.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 196197765 | 196196792 | - |
| chr2H | 2 | 196198594 | 196198527 | - |
| chr2H | 3 | 196200372 | 196200244 | - |
| chr2H | 4 | 196200943 | 196200894 | - |
| chr2H | 5 | 196201575 | 196201168 | - |
| chr2H | 6 | 196202024 | 196201954 | - |
| chr2H | 7 | 196203345 | 196203171 | - |
| chr2H | 8 | 196204297 | 196204201 | - |
| chr2H | 9 | 196205297 | 196204438 | - |
| chr2H | 10 | 196205912 | 196205811 | - |
| chr2H | 11 | 196206098 | 196206017 | - |
| chr2H | 12 | 196206600 | 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 | 3.1408 | 2.53858 | 0.000748971 |
| morex | ETI | 0.00777163 | 3.55974 | 5.77567 |
| morex | LEA | 0.000125135 | 0.0000387276 | 0.000739841 |
| morex | EPI | 2.49568 | 0.05091 | 2.63128 |
| morex | ROO | 0.000121001 | 1.8598 | 0.00072871 |
| morex | ROO2 | 3.68568 | 1.95399 | 2.80454 |
| morex | NOD | 1.83605 | 0.00929743 | 3.11126 |
| morex | RAC | 4.27776 | 3.19256 | 7.08962 |
| morex | INF1 | 2.53847 | 8.20613 | 10.7406 |
| morex | INF2 | 7.12854 | 9.45192 | 8.53693 |
| morex | CAR5 | 5.96274 | 4.65321 | 3.58899 |
| morex | CAR15 | 0.00123845 | 2.07267 | 2.03367 |
| morex | LEM | 0.00823514 | 2.71839 | 3.56133 |
| morex | LOD | 4.40037 | 0.0351815 | 0.0417748 |
| morex | PAL | 3.6164 | 6.04715 | 5.26199 |
| morex | SEN | 3.90182 | 3.54137 | 0.0116415 |
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 | 1263 | 660/905 (73%) | protein|B3 DNA binding domain containing protein, putative, expressed |
| TAIR PP10 | AT4G32010 @ ARAPORT AT4G32010.1 @ TAIR |
+1 | 2e-139 | 439 | 237/452 (52%) | Symbols: HSL1, HSI2-L1, VAL2 | HSI2-like 1 | chr4:15481231-15484897 FORWARD LENGTH=780 |
| BRACH PP3 | Bradi1g24720.2.p | +1 | 0.0 | 1356 | 698/914 (76%) | pacid=32795969 transcript=Bradi1g24720.2 locus=Bradi1g24720 ID=Bradi1g24720.2.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 (3204 bp)
>BART1_0-u10056.004 3204 150831_barley_pseudomolecules NNNNCGTCCAAGCAGCCGCAGCAGCAGCACCAACAGCAGCAGCAGCAGGGCCCTTCGCCC GCCTCGCTCCAGCAGCGGCCCAGGATCTGCTTCAACGCGCACTGCAAGGACCCCAAATCC GAGGGCGCGCGCCACCGCGGCTGGCGCCTCCGCTCCGGCGACTACGCCGAGCTCTGCGAC CGATGCTATGGTTCGTTCGAGCATGGGACCTTCTGCGAGACGTTCCACTCGGAGGTGGCC GGATGGAGGAAATGCGAAGCGTGCGGGAAGAGGCTACATTGTGGGTGCATCGTCTCCGTC CATGCGTATGCGCTGCTCGACGCCGGCGGAGTTGACTGCATCCTATGTGCTCGCAAGTCG TATGTGGCAATGGCACCAAGTCAGATGTGGTCAACTCCTACTGTGCATATGCCTCAAAAT GTTGCTGACAGAAAGGACAGTTATGTAAAGAGTTGGAGACCTCCTGCGGGCCAGATTTCA AGTCAGTGGCGACAGAATCACCAGCTGTGGAACATGTCCAGTATACAGACGGACTTGCAG CAACGTCTAGCTTATGAGTTTGATAGGCCAAGTGGCAGTGAAAAATTACCTCCAGGGCGC ACTTTTATTCATGCCCAGGAAAAGAAATCCGATGACATGCATGACAGACCAACGACACCT GCCGGCATGGGCCAGATTATAAGGGACAGATATGCCAATGGGCTCGGACAGCAAACAAAC ATGGATCCGACACACTCCTCTACGCCCTACCAGAGAGAAGGACCAAATCAAAATAGCCTT CATGATCCTAGTCACCATGTAGGAGAAAGTGACCCTTTGTCTTCAAGGAAAGGGATAGTT TCAGATGGTGGTTCTACTGCATCTACTGGCTTTAAGCTTGATCCACATCATCCATCCATT CTAAAGGATGATGCGGCATCAACCCTGCCGACAATGGGTGGCTACACTATCACTAATTAT CCACCGGTACCTGGACGAAGCGACCATCTCAGAATCATACCTAATAATCCGCAACAACCA CCCACCACGGTGCCCGTCTCAGTAGTGCAGAAACAGTTCTATTCCCATAGTGTCATTGAG CCCGACTACCAAGCGCAATTCCGTAATGGAAAGCCCAGAATGGAGTCCAGAATGGATGCA AAGGCGAGATCTCAATTACTTCCCCGCTACTGGCCTAGAATAACAGATAAAGAGCTACAG CACTTATCGGGAGAGTATCCAAAAAACTCTACTTCGAATTCTGTTATTACTCCTTTGTTC GAGAAAATGTTAAGTGCCAGTGATGCTGGTCGGATTGGTCGTTTGGTGTTGCCAAAGAAA TGCGCCGAGGCATACTTCCCCCCAATCTCTCAGCCAGAAGGACTTCCCTTAAAAGTTCAG GATGCCAGTGGTAAGGAATGGGTGTTCCAGTTCCGTTTCTGGCCCAATAATAACAGCAGG ATGTATGTATTGGAGGGTGTCACACCTTGCATTCAGTCGATGCACTTACAAGCGGGCGAT ACAGTAAGTTTCAGCCGAATAGATCCAGAAGGGAAGCTGGTCATGGGATTCAGAAAGACA AAGACTCAAGAACAGATATTCCGCCAGGAAGAACCAACAAAGCCTGCAAATGCTGCCCCA AATCTTCCAGATGTGAATGTTAATGTCACCGCTCCAGATTCTAGTCCAAATTCTGCGTTG GCGCGGCCAAATAAAGTCAACACAGAGAACAAAGATACTAGCCCTGTGGAACAAGCAGCT GCCTGTAAAATGGAGAAAACTGGAGTAGCACAAAAGGAAGGGCAGGGAACTGTTCGCTCA TCCCCTGGACCTGTCAAGAGAAAAGCAACATCTCTTGGTTCGAAGATTAAACGGTTCCGG ATTGATAACGAGGAATCTATGGAATTGAAGATAACATGGGAGGAGGCTCAAGAATTGCTT CGACCTCCTCTGAAGGCCCCATCGGTTGTTATTGTTGATGGCCATGAGTTTGAGGAATAT GAGGAGCCACCAGTACTTGGGAGGAAGACATATTTTGTTACTGACCAATCAGGTTTCTTC TTTATCAGTGAGAATCATCAATGGGCTCAGTGTGAGGATTGTTCCAAATGGCGGAAACTG CCAGTAGACGCCCTTTTGCCCTCTAAGTGGACCTGTTCTGACAATAAATGGGATCCTGAA AGGACGACTTGTGTCTCTCCACAAGAAGCAAGCATGGAGCAACTTGCAGAGTTGATTCCT ATAAAAGCAGGTGCTGCAAAAAAGGCTAAACTGAAGATGGAAACTGACAGTATTGATGTT TCGGATGGGCTGGACACTCTGGCAAACCTTGCTATTCTTGGTGAGGGTGAATCTCTCCCT TCCCAGCCAACTACAAAGCACCCCCGCCATCGCCCTGGCTGCTCGTGCATTGTGTGCATT CAGCCTCCTAGTGGGAAGGGCCCAAAGCACAAGCAGACGTGCACCTGCAATGTATGTATG ACGGTGCGCCGTCGTTTTAGGACACTGATGCTTCGGCGTGAGAAGCGTGCGTCTGAGAAA GAATCGGAAGAGCCGCCTCGCAAGAAAGAGCAAGGCCAGTCGAGCGAGTCGATTCCACAA GATGTGCTGCCGGCTAGCACCAGTCCTACTAGCACTCCCCAAAACGTGAACGGAAATGGT GAAGATGCGGAAGAAACCGTGGAGCATAGCATGGTATCCTCTCCTATGAAGAACCAGATT GACCTGAACATTCAGCCTGAACGGGAAGACGAGCAGTCACCAAAATCAGATGCGGTCGGT GCAATGAGACTTCCCCGAGAGAACGCAGCCTAGTGCGGCTCACCGTAGTGGTGATAGATA ACACCAGATTGAAAACTGTCTATACCAATGGAGATATGCGGCGCCTGGAGTTGTAGTGTA GGTGTTATTACTTTTTCCATACAAAAGGATCTAGTTTCCTTCCTGTTGCGGGGGACATAT TTCCCAGTGTTGATGCTATATCGTGTATACCATAGATCAGTCGGTTGGTGCTGTAGGCAG GCCCTGTTGTAGGTGTTGCCTACCCTGTATGTATGTGTATTGTAAGGGCAGCGCTCTTCG GCACCATGTAAGCGGCATGCATAATTTATTCATGTATCGGCTCAACCATCCAAACTAGTA ATGCTTCTAATGTCAAAACACAGATAAGGTGTCCTTGTTCCGGTTGGCAAAGAAGCGTTA TCCTAGATCGTCCCCTGATGGGTG
Protein Sequence (930 aa)
>BART1_0-u10056.004 930 150831_barley_pseudomolecules XXSKQPQQQHQQQQQQGPSPASLQQRPRICFNAHCKDPKSEGARHRGWRLRSGDYAELCD RCYGSFEHGTFCETFHSEVAGWRKCEACGKRLHCGCIVSVHAYALLDAGGVDCILCARKS YVAMAPSQMWSTPTVHMPQNVADRKDSYVKSWRPPAGQISSQWRQNHQLWNMSSIQTDLQ QRLAYEFDRPSGSEKLPPGRTFIHAQEKKSDDMHDRPTTPAGMGQIIRDRYANGLGQQTN MDPTHSSTPYQREGPNQNSLHDPSHHVGESDPLSSRKGIVSDGGSTASTGFKLDPHHPSI LKDDAASTLPTMGGYTITNYPPVPGRSDHLRIIPNNPQQPPTTVPVSVVQKQFYSHSVIE PDYQAQFRNGKPRMESRMDAKARSQLLPRYWPRITDKELQHLSGEYPKNSTSNSVITPLF EKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDASGKEWVFQFRFWPNNNSR MYVLEGVTPCIQSMHLQAGDTVSFSRIDPEGKLVMGFRKTKTQEQIFRQEEPTKPANAAP NLPDVNVNVTAPDSSPNSALARPNKVNTENKDTSPVEQAAACKMEKTGVAQKEGQGTVRS SPGPVKRKATSLGSKIKRFRIDNEESMELKITWEEAQELLRPPLKAPSVVIVDGHEFEEY EEPPVLGRKTYFVTDQSGFFFISENHQWAQCEDCSKWRKLPVDALLPSKWTCSDNKWDPE RTTCVSPQEASMEQLAELIPIKAGAAKKAKLKMETDSIDVSDGLDTLANLAILGEGESLP SQPTTKHPRHRPGCSCIVCIQPPSGKGPKHKQTCTCNVCMTVRRRFRTLMLRREKRASEK ESEEPPRKKEQGQSSESIPQDVLPASTSPTSTPQNVNGNGEDAEETVEHSMVSSPMKNQI DLNIQPEREDEQSPKSDAVGAMRLPRENAA