- Transcript BART1_0-u18690.002
- Transcript IDBART1_0-u18690.002
- Gene IDBART1_0-u18690
Barley RTD
Exon Structure of BART1_0-u18690.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 67423171 | 67421725 | - |
| chr3H | 2 | 67425398 | 67425189 | - |
| chr3H | 3 | 67425680 | 67425530 | - |
| chr3H | 4 | 67425991 | 67425751 | - |
| chr3H | 5 | 67426259 | 67426201 | - |
| chr3H | 6 | 67426950 | 67426694 | - |
| chr3H | 7 | 67427189 | 67427047 | - |
| chr3H | 8 | 67427332 | 67427278 | - |
| chr3H | 9 | 67427506 | 67427429 | - |
| chr3H | 10 | 67429281 | 67427601 | - |
| chr3H | 11 | 67429943 | 67429767 | - |
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 | 0.343309 | 0.0791408 | 2.63688 |
| morex | ETI | 0.397726 | 1.77137 | 2.04223 |
| morex | LEA | 1.5325 | 2.34893 | 4.27108 |
| morex | EPI | 1.46177 | 3.10672 | 4.22613 |
| morex | ROO | 0 | 3.01952 | 1.7704 |
| morex | ROO2 | 2.18069 | 2.27828 | 1.54581 |
| morex | NOD | 0.000000115377 | 0.958926 | 0 |
| morex | RAC | 2.47225 | 3.31463 | 2.57112 |
| morex | INF1 | 2.12047 | 0.00444889 | 0.949729 |
| morex | INF2 | 5.10135 | 5.64335 | 0.00136124 |
| morex | CAR5 | 6.43631 | 3.68358 | 7.92952 |
| morex | CAR15 | 3.86513 | 1.99934 | 3.56964 |
| morex | LEM | 0.667081 | 1.9077 | 2.40799 |
| morex | LOD | 2.21658 | 2.35321 | 1.39261 |
| morex | PAL | 2.17697 | 2.18537 | 1.60272 |
| morex | SEN | 3.05238 | 4.89081 | 2.11575 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g08700.6 | +2 | 0.0 | 1567 | 807/912 (88%) | protein|GIGANTEA, putative, expressed |
| TAIR PP10 | AT1G22770 @ ARAPORT AT1G22770.1 @ TAIR |
+2 | 0.0 | 1144 | 624/929 (67%) | Symbols: GI, FB | gigantea protein (GI) | chr1:8062398-8067447 FORWARD LENGTH=1173 |
| BRACH PP3 | Bradi2g05226.1.p | +2 | 0.0 | 1643 | 846/906 (93%) | pacid=32776210 transcript=Bradi2g05226.1 locus=Bradi2g05226 ID=Bradi2g05226.1.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 (4499 bp)
>BART1_0-u18690.002 4499 150831_barley_pseudomolecules CCCTCCCATTACGGAAAAAATCTTTTTCTCGCCTCTCCTCGCCCCTCACATTTTTCTCTC TCCTCCTCCTCCTCCTCTCTGCCTTCGCCTCTGCCTCAGCCTCGCCCGCCGCGCAATCCC GTCGCCGGCGCCGCCGATTCGCCGCCCGAGCTCCGTATTGGGGCGCTCCCGACCGAGCTA AACTCAAGGCCACAAGCAGAAATCTCGAAAGAAGCGGGTGTTGTGTGTCTGAGAAATTTT ACTTGCTTTTGAAATATATCTGATGTGCAGAATTAAACTCCTTTTGGTTCTGCTCCTGTT CAACTTCCGAGGGTTACGTGTTGGAATGGATCTATATTGCATTTGTCTACTTGCTATATT TAGCGCGTGGATGGATCTAATCGGATTTTCTAAATTAGAAACGTGCGATGTTCGATAATA GACAAAAACATGGTAAGGCAAGTGAACTACCAATATTGTTTTACCCAAATTTGGTTAGCA GTCATCTGACTTGCAGTTATTGCCCCTCTGAAATATGTGGATTGTGTATTATTATGTTCA GATTTGTATGAACTTGTACAGTAGTTATAAGCTTACAACGTAGCTCTGCTATTGTTTTTT CTTTCTCCTTTTTCTTCATTCTGGTTTCTGTTTCTGGGGTCCCAGTTCCGAGTTGTTTTC TTTGTTTCTGCGTTGTGCCATTTTGGTGTTACTCATCTAATACAAACGGCACATCTTTTG GTCTGATGTGTCATGTGTGTTCGAGAAAGACGGCATATATCTTTTATTTCTTTATTGAGA ATGGTTGCTCCTTTTCTAGATGAGAATTTGATGCTTCTAGTTGTGTAAAAATACATCAAT TTTACACACATAAGCTCTTTTTAAAGTCCAAAAGACAATCCTCAGCTCCGAAACAAAACA GTTCAATTTGCAACCTAAAACGACCCCCCCCCGCCGCGCGCGCGCCAAAAGAAAGAACAT CTTTTGGGAGACGTGCCATTTACGTCCAAGGCAGCCATCTCTCCAACTCGAGGAATCATG TTGAGCAGAATTGGGTCTGGGACCAATGATGAAGATGAGTAGATGACTGAGCCCTTGGAT CCTGATCCAAGGGTCAGAGTTGGCGATTAGATGTGTTCCTATACTATCTTATTTCCCCAA GCATCTGGAATCATTCCATTCCATCCCATTCTCAAATCTCAAAGTCCAGGATGGTTCCAT TCCAGTCTACTTCATTCCTCAAACCACTAACGGTTTTAGAGTTGAAATCCTTTTTCTGAC TCTGTTAAGGGCTGGGAATGTAAACGAGACTTCTTTTTAGAAATATGTTGCCAAGGCTAT GCAAAATTTGTTCCATTGGCTGGTTGACCTCCTCTCTTGTCAATTTATGGCAATATTTCT TGTTTTAAAATTTATTAAAATGACATCTATAATAATGTCCCTTTCCTTCTTTCGACTTTC CTTTTGCTATATTTTGCAATGCAGAGACGTTAAGCGCCTATGGTTGGAACTGGTTGATAT GATATCTGGTCACATTGTGGGATGCAATCCCCCCTTAGTGGGGGGTGATTGAAGAAGTCA ACAATAGGAGAACTTGCATCTTGCTGAAGTTTTCTGGTACTGAGGCAAGTAGCTTATAAG AAGAATAGGGAATGGCATAGATGGATAACTGACCCGCTATTTTAGCATGCTGTTGAATAT GCTTTTATTGCTAACTGGGGCAGTTTTTCTAATTTCTTTCTTTCTGAGTGTTCCTCTCTA GTTTCTTGAGCAGGCTCTTAAACTACCAAGTATGTCAGCGTCAAATGGGAAGTGGATTGA TGGACTCCAGTTCTCATCACTGTTCTGGCCCCCGCCACACGATGCGCAGCAGAAACAGGC ACAAATTTTAGCCTATGTTGAGTACTTTGGTCAGTTCACATCTGACAGCGAGCAATTCCC GGAGGATGTAGCTCAGCTAATTCAAACTTGCTATCCATCAAAAGAAAAGCGGTTGGTAGA TGAAGTATTAGCAACTTTTGTTCTCCATCACCCCGAGCATGGTCATGCAGTTGTACATCC AATTCTTTCACGCATCATAGACGGGACACTGAGTTATGATAGTCATGGTTCCCCATTCAA TTCCTTCATCTCCTTATTTACCCAAAGTTCTGAGAAAGAGTACTCAGAGCAGTGGGCCTT GGCCTGTGGAGAGATTCTTAGAGTTCTAACTCACTACAACAGGCCAATCTTTAAAGTTGC AGACTGTAACAACACCTCTGACCAGGCTACAACAAGTTGTTCTGCACAGGAGAAAGCTAA TTACTCTCCAGGAAATGAACCTGAACGGAAGCCATTGAGGCCATTATCTCCTTGGATCAC AGATATTTTGCTAACTGCACCTTTAGGCATTAGAAGCGACTATTTTAGATGGTGTGGTGG AGTTATGGGAAAATACGCAGCTGGTGGAGAATTGAAGCCTCCAACAACTGCTTACAGCCG AGGAGCTGGTAAGCACCCACAACTCATGCCATCCACCCCAAGATGGGCTGTTGCCAATGG AGCTGGAGTTATTTTAAGTGTCTGTGATGAGGAAGTAGCTCGTTATGAGACAGCAAACTT AACCGCGGCAGCTGTTCCCGCCCTTCTGCTACCTCCACCGACAACACCCTTGGATGAGCA TTTGGTGGCAGGGCTACCCCCTCTTGAGCCATACGCTCGCTTGTTTCATAGATACTATGC AATTGCCACACCAAGTGCTACACAAAGATTGCTTTTTGGTCTTCTTGAAGCACCACCATC ATGGGCTCCAGATGCACTTGATGCAGCAGTTCAGCTTGTTGAACTCCTTCGGGCAGCTGA AGATTATGCTACTGGCATGCGGCTTCCAAAAAATTGGTTGCATCTTCATTTCTTGCGTGC GATTGGAACTGCAATGTCTATGAGGGCTGGTATTGCTGCCGATACAGCTGCTGCGTTGCT TTTTCGCATACTATCCCAACCAACGTTGCTTTTTCCTCCACTAAGGCATGCTGAAGGAGT TGAAGTGCAACATGAACCACTGGGTGGCTATGTATCATCATACAAAAGACAGCTGGAAGT TCCTGCATCTGAAACCACAATTGATGCCACTGCACAAGGCATTGCTTCCTTGCTGTGTGC TCATGGTCCTGATGTTGAGTGGAGAATATGTACCATCTGGGAAGCTGCCTATGGTTTGTT ACCTCTGAATTCATCAGCAGTTGATTTGCCCGAAATCGTTGTAGCTGCTCCGCTTCAGCC ACCTACTTTGTCATGGAGCCTATACTTGCCACTGTTGAAAGTATTCGAGTATCTACCTCG TGGAAGTCCATCTGAAGCATGCCTTATGAGAATATTTGTGGCAACAGTTGAAGCTATACT CAGAAGAACTTTCCCTTCGGAAACCTCTGAATCATCTAAAAGACCAAGAAGTCAATCCAA GAACCTTGCTGTTGCTGAACTCCGTACAATGATACATTCACTCTTTGTTGAATCATGTGC TTCAATGAACCTTGCTTCCCGGTTGTTGTTTGTTGTATTAACTGTTTGCGTCAGTCATCA AGCTTTGCCAGGGGGCAGCAAAAGACCAACGGGTAGTGAAAACCATTCTTCTGAGGAGGC CACTGAGGACCCAAGATTAACCAATGGAAGAAATAAGGTCAAGAAGAAACAAGGGCCTGT TGGTACATTTGACTCGTATGTGCTGGCTGCTGTTTGTGCCTTATCTTGTGAGCTTCAGCT GTTCCCTATCCTTTGCAAGAGTGCAACAAACTCAAAAGTAAAAGACTCTATAAAGATCCT GAAGCCTGGAAAAAACAATGGGATCAGTAATGAGCTACAGAATAGCATTAGCTCAGCAAT TCTCCATACTCGTAGAATTCTTGGCATCCTGGAAGCTCTTTTCTCCTTGAAGCCATCATC AGTTGGTACCTCCTGGAACTATAGTTCAAATGAGATAGTTGCAGCGGCTATGGTTGCCGC TCATGTTTCTGAGTTATTTCGCCGGTCGAGGCCATGCCTAAATGCACTATCTTCACTGAA GCGATGTAAGTGGGATGCTGAGATTTCTACCAGGGCATCATCCCTTTACCATTTGATCGA TTTGCATGGTAAAACTGTGTCCTCCATCGTGAACAAAGCTGAGCCTCTAGAAGCTCACCT GACTTTTACATCAGTAAAGAGAGATGGTCAACAACACATTGAGGAAAACAGCACCAGCTC ATCGGGTAATGGCAACTTGGAAAAGAAGAATGCTTCAGCCTCACACATGAAAAATGGTTT TTCAAGACCACTCTTGAAATGCTCAGAAGAGGCTAGGCGAAATGGTAATGTTGCAAGTAC ATCCGGGAAAGTTCCTGCAACTTTACAGGCTGAAGCATCTGATTTGGCTAACTTCCTTAC CATGGATAGAAATGGGGGTTATCGAGGCTCTCAGACTCTCCTAAGTTCTGTTATCTCAGA AAAACAGGAATTATGCTTCTCTGTTGTCTCATTGCTCTGGCATAAGCTTGCATGCNNNN
Protein Sequence (909 aa)
>BART1_0-u18690.002 909 150831_barley_pseudomolecules MSASNGKWIDGLQFSSLFWPPPHDAQQKQAQILAYVEYFGQFTSDSEQFPEDVAQLIQTC YPSKEKRLVDEVLATFVLHHPEHGHAVVHPILSRIIDGTLSYDSHGSPFNSFISLFTQSS EKEYSEQWALACGEILRVLTHYNRPIFKVADCNNTSDQATTSCSAQEKANYSPGNEPERK PLRPLSPWITDILLTAPLGIRSDYFRWCGGVMGKYAAGGELKPPTTAYSRGAGKHPQLMP STPRWAVANGAGVILSVCDEEVARYETANLTAAAVPALLLPPPTTPLDEHLVAGLPPLEP YARLFHRYYAIATPSATQRLLFGLLEAPPSWAPDALDAAVQLVELLRAAEDYATGMRLPK NWLHLHFLRAIGTAMSMRAGIAADTAAALLFRILSQPTLLFPPLRHAEGVEVQHEPLGGY VSSYKRQLEVPASETTIDATAQGIASLLCAHGPDVEWRICTIWEAAYGLLPLNSSAVDLP EIVVAAPLQPPTLSWSLYLPLLKVFEYLPRGSPSEACLMRIFVATVEAILRRTFPSETSE SSKRPRSQSKNLAVAELRTMIHSLFVESCASMNLASRLLFVVLTVCVSHQALPGGSKRPT GSENHSSEEATEDPRLTNGRNKVKKKQGPVGTFDSYVLAAVCALSCELQLFPILCKSATN SKVKDSIKILKPGKNNGISNELQNSISSAILHTRRILGILEALFSLKPSSVGTSWNYSSN EIVAAAMVAAHVSELFRRSRPCLNALSSLKRCKWDAEISTRASSLYHLIDLHGKTVSSIV NKAEPLEAHLTFTSVKRDGQQHIEENSTSSSGNGNLEKKNASASHMKNGFSRPLLKCSEE ARRNGNVASTSGKVPATLQAEASDLANFLTMDRNGGYRGSQTLLSSVISEKQELCFSVVS LLWHKLACX