- Transcript BART1_0-u19238.004
- Transcript IDBART1_0-u19238.004
- Gene IDBART1_0-u19238
Barley RTD
Exon Structure of BART1_0-u19238.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 133980544 | 133980009 | - |
| chr3H | 2 | 133980745 | 133980629 | - |
| chr3H | 3 | 133980989 | 133980885 | - |
| chr3H | 4 | 133981597 | 133981505 | - |
| chr3H | 5 | 133984485 | 133981692 | - |
| chr3H | 6 | 133984718 | 133984615 | - |
| chr3H | 7 | 133985153 | 133985055 | - |
| chr3H | 8 | 133985370 | 133985247 | - |
| chr3H | 9 | 133985932 | 133985769 | - |
| chr3H | 10 | 133988797 | 133988039 | - |
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 | 0.000000733558 | 1.42104 | 5.19815 |
| morex | ETI | 9.6148 | 10.5715 | 14.1295 |
| morex | LEA | 5.45196 | 2.16698 | 4.69433 |
| morex | EPI | 2.65811 | 4.75676 | 4.28828 |
| morex | ROO | 1.31728 | 1.85401 | 0 |
| morex | ROO2 | 6.93498 | 8.99523 | 12.498 |
| morex | NOD | 1.89449 | 13.5346 | 8.43906 |
| morex | RAC | 34.9043 | 39.7817 | 32.8829 |
| morex | INF1 | 3.13713 | 2.00849 | 0.00000506751 |
| morex | INF2 | 13.57 | 12.1879 | 7.3429 |
| morex | CAR5 | 2.31523 | 0.00135449 | 2.23336 |
| morex | CAR15 | 0 | 0.863146 | 0 |
| morex | LEM | 31.8113 | 18.5739 | 21.3646 |
| morex | LOD | 16.3268 | 19.3491 | 14.0381 |
| morex | PAL | 31.1132 | 20.1753 | 26.3938 |
| morex | SEN | 1.21119 | 2.61338 | 3.24016 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g11040.1 | +1 | 0.0 | 1112 | 732/1187 (62%) | protein|SCAR-like protein 2, putative, expressed |
| TAIR PP10 | AT4G18600 @ ARAPORT AT4G18600.1 @ TAIR |
+2 | 3e-41 | 162 | 82/161 (51%) | Symbols: WAVE5, ATSCAR-LIKE, SCARL | SCAR family protein | chr4:10239947-10247372 REVERSE LENGTH=2028 |
| BRACH PP3 | Bradi2g06610.2.p | +1 | 0.0 | 1253 | 773/1196 (65%) | pacid=32774244 transcript=Bradi2g06610.2 locus=Bradi2g06610 ID=Bradi2g06610.2.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 (4895 bp)
>BART1_0-u19238.004 4895 150831_barley_pseudomolecules GTGAAAACCAAGAAGGGCCAAGCACGGCCGGAAATGGCAAAGCACCCCCGGCCCCCGCGC GACCCAGCACAGCACAGCACAGCACAGCACAGCAGCCTCCCACCACAACATAGCGGCGGC ACCGGGTATCGAGCATCCAAATCCAAGCCGAGCCCGAGAGCTGAAGCATAATCACGCGGC GCACACCACTCACCAGTCGCCAGGCCGCGCCACTTGCCCACCCCCCTCGTGCCCGCAGCG CTGCGTGCGCTTCCCTTTCCCACCGTCCCTTTCGCCCCGCACCCTGTCGGAGACCGACGC TCCTCCCCTCCCCTCCCCGTCCCCGTCCCCGCCACGCGCCTCGGCGTCGCCTCCACTCCT CCCCCCCTCCCCGCCACTCGCCTCGGCCGCCCCCTTCCGTGCGGAGGCGGCAACCTGTGA CGCCCCAAAGTCGGCGCACCTGCTCCCACTGGGAAAGTAGCCGTTGCGGCGTCGCATTTA TAGCGACCGCCAGGCGTCACGATGGCCGCTGCTCGGCGGTGAGGAGGAGCCCGCTCTCGC GCGCTCGGTGGTTGGTGGAGCGGAGATGCCGCTGGTCAGGTTCGAGGTGCGGAATGAGGT CGGGCTGGGCGACCCCGGGCTGTACGGCGCCGCGGGGGCAGGGAAGCGAGGCGGCGCCGG CGCCGCCGCCGCAGGGGAGGCCGAGCCCAAGGCGCTGCTCGAGGGCGTCGCCGTCGCGGG CCTCGTCGGGATCCTGCGCCAGCTCGGAGATCTCGCCGAATTTGCGGCAGATATTTTTCA TGACCTACACGAGCAAGTTATAACTACATCGTCTAGGGGGCGTAAGGTGTTGACTCGAGT ACAGAACATTGAAGCAGCACTTCCATCTCTTGAAAAAGCTGTGAAGAATCAGAAGAGCCA TATACATTTTGCTTATGTACCAGGTTCTGACTGGCACACACAACTTCAAAATGAGCAAAA TCATCTCCTATCCAGTGATCTGCCTCGGTTTATGATGGATTCCTATGAAGAATGTCGAGA CCCACCACGACTTTACCTTCTCGACAAAGATATTCTGATCCATCTTACTTCAAGAAATCA TGGGATGTGATGAGAGCAGACAAGACTGCACATCTCCAAAAAGAAAGGAGATCTCATAAA ATCAAGAGGAAAGGATCACGCCTAAAAGAACCATATCATGGACAAGCCACATCCAGGCAT AGGAATGGTGAATTGCAGCGAGCACTCACTGCTGTTCAACTCACCAGCAGGCAGTGTGCA TCTCCCAGCATGGATGGCCAGAGTTTTTCGGAGCATAGATCTACATCTGATGCAAGATCC AACCCTGACAATATAAGCAGATCTTCTTCATTTAGTTCAAAGGCACGACTGAGTTTTGCA GAACAAGCTTCAGATACAAAGCCTTCTGTAATTCCTCATGAGAATGGTCATGCCAAGCTG TCAAATATTGATATGCACAAGCTTAATGATGCCTCTTCCCCCGTCTTGCTTAGCGAGACC AGGGAAGATGATCTGGGTGATGATTTGAAGCAAGGTTCCCTGTCAGATGAGATGAATGCT AGGTCACCTTCTGTTGAATGGCATGAAAAGGCTGCAATTGTCATGACTACAAGTTCTGTC TACTGTGATGATGTTGTCATGGATAGGGCTGAAAATGCAGAAACTAAACATATTAAGCCC GTGCAGCGAGAAGTTGATTATAGGGAGATGCAGACCTTGGAGCAGCAAGGGGCCTTACTT CAGAAGGCAAAGTTGTTATTACTGTCATCAGGCTTAAACCACCGTGATGAAGTCCCCTGT GAAACAGACAACTACATGGATGCACTTAACACACTTGAATCTGAGACAGAGACTGAAGTT GACTCTCAAACTAAAAAACAAGGGAAGCCAGTACATTCCTTCAATGCTCATGCACCTCAA ATAGAGTTGACAGATAATGCCGTTTCACAGCTTCCTGATTCTTCTCCTGTTGAGTTTCCT GATACAAGTCCAAATTCCAGAATGTTACATACTTTTGAAAGAAGTGCCGATTTCCCCAGT TTGTCAAGTGCAGATGCTCCGGATATTTCACAGCATTCATTGTCAGGTTATACAGATATA CATCCTAATGAATGGTCATCTGTTACCACCATCCCTGAGAATAATGCAAATAATGCTGCT GGAGACCCCACTGAAATTTCAGAACCGGCACTGCAAGCATATACACCTACACCACCCAAT CAAAGGTGCCCTCGTGCAAATGAGATTCCTGAGAGTAAGGCAGAAGTTATCCCCAGAGAT TCTCCTGTGATCTCAAAACCAGAGCTGTCAACCTATGCAGTTTTCCCTCCCAATAAAGAG TCTATTGTCAGTCAGATCCCTGAGAATAGTGTAGAAGGTGTGTCAGAAGATGATACCAAT GAAATCACTAGTTGTCTTGTACCGGAACCTTCCATTTCCTTTGCTCCAACTAGTGAGGCG TCTCCTGCAAAAATCTTACCTGGTTATAACACTGGTAACTCTGTAATTTCGGAAAGGAGT CCTCAGGATTATCCTGGAGAAAATCATCAGGAATTTGGTGGCTGTGGCATGGCTGAAGTG TCTAATTCACAGACCATGCCTTTGAACGAGTCATCAGAGAATGGATCTGCAACCCAACAC CTTCCCACACATGCTCCTACTAGTTCCCAACACCTTCCCACACATGCTCCGACTAGTTCT GTAGAATTATCTTCTGTTAAGCTCTGGACAAATGCTGGTCTCTTCGGACTTGAACCGTCT AAACCTCCAGTTGGCATATGTCCAGGTTCTGCAAACCAAAGCTACCCAGAGAATAATCAA TCAGCCACAAGAACACCTGATGCAGTTTATAGCCAAACAAACCGGCCCTCAGATTCTTCC ACATATTTCGAGCACAGGGAGCACAGCAATTTGAATGGCAAGCAAGCTTCAATAAGTGAG CTCCTAGAATCTGAAGGTAATGCTGAAATTGGTGCTGAAACATACTCTGGCACTGACTTG GTTGGAAGGAATAACTTGCCCGTGGTGTCTGCATCAAGCTTCTCGAGCATTGCACAAAGA TTCCTTGCCAATACACTTCAGAGAAGAACTTCTCCCAAATATAATGATCTTCCTATGTCA TCTGGGAGAGTGAATACTGACACAAATGGGTTTGATGAAGCTACTGTAAATTCTACTCTT GCACCAAAGGAAACAGTATTCGAGGCATCTCAGTTTGAGAAGAAAACAGATTATGGCGTG GATGGACTGCCCAAGTCCTCTAGTTGCCATTACTCTGAGAAATCATCTCCGCCACTAGAG CATATGAAAATATCCTTTCACCCCATGAGTGCATCTGAAATGTCGAAATTGAACCTAGAT TTTTCTGATGGCAATCTTCATGAAAATGTTGATGATATGATGTTACCAACATTTCAGTTA CTTCCAGGGTCTTCTGTCCCACAGCCTGGCAGTGGTTCTGAATCAGAAGATGACACCTTT GGTAGATCTTATAGTTATTCTTCATATGATGATCTAAGTCCGCGTTTATATTCAAACTCA GAGTTGTGGGATCAAGAAGATGGAATTGGATTCGAGGATAATGAGCTGTATAATGATTCA AATCAAATAGGATCCTCCACAACGCCTGTCTCTAGCTATATGGGATTCGAGCAGATGAAC TTATCTGGTGAGAAGTCCACTATTTCACTTTCAGATATTGGAGATAATAACGGACTCGGC TCGTTAGAATCCCATCCTGCTGGAGAACTTCCGAACTTTGACACTTTGATGTCAACAAGT AATCATCAAAATAGAGATGCGCTCATTCCACAAAATCCAATCAATTTATCACCAGTTGTA GATCAGATGCCGCCGCCACCTCCTCTTCCCCCAATGCAGTGGAGGACAATGAGACAAACA ACTTCCCTAGAAGAAGAAAGAGACTCTACGGCTAAAGACATGCTTGAGAATGCCTCAAGT CTACCACCTGTACACACTCCTGTGCAGGAACAACATCTTCCACCGTGTGCACCACCATTT CCACAAGGAAATGTTAAGGAAGTGAACCATCAGAAAGTTGATGTGATCAAAGAAACGAGT AATCTTCCTAATATATTTGAGATCAAATCAAGCTTGCTTCAGCAAATCAGGGATAAGCCA GATCTGCACAAGCTGAATGGACATGAAAAGTCCAAAGCAGTATTCAGTGATGTTAACAGT TTGGATGAAAGGGGGGAGTTGCTTCAGCAAATCAGGAGCAAGACATTCAACTTAAGACGA ACAAATGGATCTAAGACAAACACCTCATCGCAGTCAACCGAGTCCACTGCCAATTCCAGC GTTGTAGCAATTTTGGAGAAGGCGAATGCAATCCGACAGGCTGTGGCCAGTGACGAGGGG GGTGATGATGATAACTGGAGCGATATCAACTGAGAATGCATATGCCAAACCTTTTCTGTA TATGCAACTAGTACAAGATGAAGAGTGAAAATGTGAATAACACCTTTTTCTTCATTGTAA TTAGATATTGCAGCTCTGTTTTTTAACCTTTTTTTAGTTCATGGTAGTGTATCTTAGATC CCTATGGTTGTAGAGATGTTAAATCATTTCAACATCATGTAAATTTATCTTATTATTTAT TAATGGTAGTGAGATGGACTAATAAAATAAGTATGTTAAGCTATCTTTTGTAGCATTGTA CTAAAAATTGTCTCTTTGCATTGTTAATAAGATGGGGGCATACTGATAAAAAAGTTATGC TGTCATTTGCAAGCATGCTATTTTTTTTGGCGAAGGCAAAATAATTCTTAAGAAATCTCG CTGCATTACCTCCATGCTTTGTATTTGAGTAGCAAAATCTAAATCAGGAGATGCAATTGA TTTTTCTTCAAGTTAGTCAATATATCATGTAAGAG
Protein Sequence (1133 aa)
>BART1_0-u19238.004 1133 150831_barley_pseudomolecules MSRPTTTLPSRQRYSDPSYFKKSWDVMRADKTAHLQKERRSHKIKRKGSRLKEPYHGQAT SRHRNGELQRALTAVQLTSRQCASPSMDGQSFSEHRSTSDARSNPDNISRSSSFSSKARL SFAEQASDTKPSVIPHENGHAKLSNIDMHKLNDASSPVLLSETREDDLGDDLKQGSLSDE MNARSPSVEWHEKAAIVMTTSSVYCDDVVMDRAENAETKHIKPVQREVDYREMQTLEQQG ALLQKAKLLLLSSGLNHRDEVPCETDNYMDALNTLESETETEVDSQTKKQGKPVHSFNAH APQIELTDNAVSQLPDSSPVEFPDTSPNSRMLHTFERSADFPSLSSADAPDISQHSLSGY TDIHPNEWSSVTTIPENNANNAAGDPTEISEPALQAYTPTPPNQRCPRANEIPESKAEVI PRDSPVISKPELSTYAVFPPNKESIVSQIPENSVEGVSEDDTNEITSCLVPEPSISFAPT SEASPAKILPGYNTGNSVISERSPQDYPGENHQEFGGCGMAEVSNSQTMPLNESSENGSA TQHLPTHAPTSSQHLPTHAPTSSVELSSVKLWTNAGLFGLEPSKPPVGICPGSANQSYPE NNQSATRTPDAVYSQTNRPSDSSTYFEHREHSNLNGKQASISELLESEGNAEIGAETYSG TDLVGRNNLPVVSASSFSSIAQRFLANTLQRRTSPKYNDLPMSSGRVNTDTNGFDEATVN STLAPKETVFEASQFEKKTDYGVDGLPKSSSCHYSEKSSPPLEHMKISFHPMSASEMSKL NLDFSDGNLHENVDDMMLPTFQLLPGSSVPQPGSGSESEDDTFGRSYSYSSYDDLSPRLY SNSELWDQEDGIGFEDNELYNDSNQIGSSTTPVSSYMGFEQMNLSGEKSTISLSDIGDNN GLGSLESHPAGELPNFDTLMSTSNHQNRDALIPQNPINLSPVVDQMPPPPPLPPMQWRTM RQTTSLEEERDSTAKDMLENASSLPPVHTPVQEQHLPPCAPPFPQGNVKEVNHQKVDVIK ETSNLPNIFEIKSSLLQQIRDKPDLHKLNGHEKSKAVFSDVNSLDERGELLQQIRSKTFN LRRTNGSKTNTSSQSTESTANSSVVAILEKANAIRQAVASDEGGDDDNWSDIN