- Transcript BART1_0-u19238.005
- Transcript IDBART1_0-u19238.005
- Gene IDBART1_0-u19238
Barley RTD
Exon Structure of BART1_0-u19238.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 133980544 | 133980009 | - |
| chr3H | 2 | 133980745 | 133980629 | - |
| chr3H | 3 | 133980989 | 133980885 | - |
| chr3H | 4 | 133981597 | 133981505 | - |
| chr3H | 5 | 133984488 | 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 | 1.44439 | 0.00000000736597 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0.00000000279549 | 0 |
| morex | EPI | 0 | 0 | 0.000000570975 |
| morex | ROO | 0 | 0.000911023 | 0 |
| morex | ROO2 | 0.0000512682 | 0.000000000236012 | 0 |
| morex | NOD | 0 | 0.000284867 | 0 |
| morex | RAC | 0.000000000766223 | 0 | 0.000000000625058 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0.0000000309118 | 0 |
| morex | CAR5 | 0 | 0.0731081 | 0.00697925 |
| morex | CAR15 | 0.000000102405 | 0.123247 | 0.00292297 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0.0000000106819 | 0 |
| morex | PAL | 0 | 0 | 0.000000000564022 |
| morex | SEN | 0.00000000743344 | 0.00000000193812 | 0.0000000051469 |
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 | 1107 | 732/1188 (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 | Bradi2g06610.1.p | +1 | 0.0 | 1259 | 779/1196 (65%) | pacid=32774243 transcript=Bradi2g06610.1 locus=Bradi2g06610 ID=Bradi2g06610.1.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 (4898 bp)
>BART1_0-u19238.005 4898 150831_barley_pseudomolecules GTGAAAACCAAGAAGGGCCAAGCACGGCCGGAAATGGCAAAGCACCCCCGGCCCCCGCGC GACCCAGCACAGCACAGCACAGCACAGCACAGCAGCCTCCCACCACAACATAGCGGCGGC ACCGGGTATCGAGCATCCAAATCCAAGCCGAGCCCGAGAGCTGAAGCATAATCACGCGGC GCACACCACTCACCAGTCGCCAGGCCGCGCCACTTGCCCACCCCCCTCGTGCCCGCAGCG CTGCGTGCGCTTCCCTTTCCCACCGTCCCTTTCGCCCCGCACCCTGTCGGAGACCGACGC TCCTCCCCTCCCCTCCCCGTCCCCGTCCCCGCCACGCGCCTCGGCGTCGCCTCCACTCCT CCCCCCCTCCCCGCCACTCGCCTCGGCCGCCCCCTTCCGTGCGGAGGCGGCAACCTGTGA CGCCCCAAAGTCGGCGCACCTGCTCCCACTGGGAAAGTAGCCGTTGCGGCGTCGCATTTA TAGCGACCGCCAGGCGTCACGATGGCCGCTGCTCGGCGGTGAGGAGGAGCCCGCTCTCGC GCGCTCGGTGGTTGGTGGAGCGGAGATGCCGCTGGTCAGGTTCGAGGTGCGGAATGAGGT CGGGCTGGGCGACCCCGGGCTGTACGGCGCCGCGGGGGCAGGGAAGCGAGGCGGCGCCGG CGCCGCCGCCGCAGGGGAGGCCGAGCCCAAGGCGCTGCTCGAGGGCGTCGCCGTCGCGGG CCTCGTCGGGATCCTGCGCCAGCTCGGAGATCTCGCCGAATTTGCGGCAGATATTTTTCA TGACCTACACGAGCAAGTTATAACTACATCGTCTAGGGGGCGTAAGGTGTTGACTCGAGT ACAGAACATTGAAGCAGCACTTCCATCTCTTGAAAAAGCTGTGAAGAATCAGAAGAGCCA TATACATTTTGCTTATGTACCAGGTTCTGACTGGCACACACAACTTCAAAATGAGCAAAA TCATCTCCTATCCAGTGATCTGCCTCGGTTTATGATGGATTCCTATGAAGAATGTCGAGA CCCACCACGACTTTACCTTCTCGACAAAGATATTCTGATCCATCTTACTTCAAGAAATCA TGGGATGTGATGAGAGCAGACAAGACTGCACATCTCCAAAAAGAAAGGAGATCTCATAAA ATCAAGAGGAAAGGATCACGCCTAAAAGAACCATATCATGGACAAGCCACATCCAGGCAT AGGAATGGTGAATTGCAGCGAGCACTCACTGCTGTTCAACTCACCAGCAGCAGGCAGTGT GCATCTCCCAGCATGGATGGCCAGAGTTTTTCGGAGCATAGATCTACATCTGATGCAAGA TCCAACCCTGACAATATAAGCAGATCTTCTTCATTTAGTTCAAAGGCACGACTGAGTTTT GCAGAACAAGCTTCAGATACAAAGCCTTCTGTAATTCCTCATGAGAATGGTCATGCCAAG CTGTCAAATATTGATATGCACAAGCTTAATGATGCCTCTTCCCCCGTCTTGCTTAGCGAG ACCAGGGAAGATGATCTGGGTGATGATTTGAAGCAAGGTTCCCTGTCAGATGAGATGAAT GCTAGGTCACCTTCTGTTGAATGGCATGAAAAGGCTGCAATTGTCATGACTACAAGTTCT GTCTACTGTGATGATGTTGTCATGGATAGGGCTGAAAATGCAGAAACTAAACATATTAAG CCCGTGCAGCGAGAAGTTGATTATAGGGAGATGCAGACCTTGGAGCAGCAAGGGGCCTTA CTTCAGAAGGCAAAGTTGTTATTACTGTCATCAGGCTTAAACCACCGTGATGAAGTCCCC TGTGAAACAGACAACTACATGGATGCACTTAACACACTTGAATCTGAGACAGAGACTGAA GTTGACTCTCAAACTAAAAAACAAGGGAAGCCAGTACATTCCTTCAATGCTCATGCACCT CAAATAGAGTTGACAGATAATGCCGTTTCACAGCTTCCTGATTCTTCTCCTGTTGAGTTT CCTGATACAAGTCCAAATTCCAGAATGTTACATACTTTTGAAAGAAGTGCCGATTTCCCC AGTTTGTCAAGTGCAGATGCTCCGGATATTTCACAGCATTCATTGTCAGGTTATACAGAT ATACATCCTAATGAATGGTCATCTGTTACCACCATCCCTGAGAATAATGCAAATAATGCT GCTGGAGACCCCACTGAAATTTCAGAACCGGCACTGCAAGCATATACACCTACACCACCC AATCAAAGGTGCCCTCGTGCAAATGAGATTCCTGAGAGTAAGGCAGAAGTTATCCCCAGA GATTCTCCTGTGATCTCAAAACCAGAGCTGTCAACCTATGCAGTTTTCCCTCCCAATAAA GAGTCTATTGTCAGTCAGATCCCTGAGAATAGTGTAGAAGGTGTGTCAGAAGATGATACC AATGAAATCACTAGTTGTCTTGTACCGGAACCTTCCATTTCCTTTGCTCCAACTAGTGAG GCGTCTCCTGCAAAAATCTTACCTGGTTATAACACTGGTAACTCTGTAATTTCGGAAAGG AGTCCTCAGGATTATCCTGGAGAAAATCATCAGGAATTTGGTGGCTGTGGCATGGCTGAA GTGTCTAATTCACAGACCATGCCTTTGAACGAGTCATCAGAGAATGGATCTGCAACCCAA CACCTTCCCACACATGCTCCTACTAGTTCCCAACACCTTCCCACACATGCTCCGACTAGT TCTGTAGAATTATCTTCTGTTAAGCTCTGGACAAATGCTGGTCTCTTCGGACTTGAACCG TCTAAACCTCCAGTTGGCATATGTCCAGGTTCTGCAAACCAAAGCTACCCAGAGAATAAT CAATCAGCCACAAGAACACCTGATGCAGTTTATAGCCAAACAAACCGGCCCTCAGATTCT TCCACATATTTCGAGCACAGGGAGCACAGCAATTTGAATGGCAAGCAAGCTTCAATAAGT GAGCTCCTAGAATCTGAAGGTAATGCTGAAATTGGTGCTGAAACATACTCTGGCACTGAC TTGGTTGGAAGGAATAACTTGCCCGTGGTGTCTGCATCAAGCTTCTCGAGCATTGCACAA AGATTCCTTGCCAATACACTTCAGAGAAGAACTTCTCCCAAATATAATGATCTTCCTATG TCATCTGGGAGAGTGAATACTGACACAAATGGGTTTGATGAAGCTACTGTAAATTCTACT CTTGCACCAAAGGAAACAGTATTCGAGGCATCTCAGTTTGAGAAGAAAACAGATTATGGC GTGGATGGACTGCCCAAGTCCTCTAGTTGCCATTACTCTGAGAAATCATCTCCGCCACTA GAGCATATGAAAATATCCTTTCACCCCATGAGTGCATCTGAAATGTCGAAATTGAACCTA GATTTTTCTGATGGCAATCTTCATGAAAATGTTGATGATATGATGTTACCAACATTTCAG TTACTTCCAGGGTCTTCTGTCCCACAGCCTGGCAGTGGTTCTGAATCAGAAGATGACACC TTTGGTAGATCTTATAGTTATTCTTCATATGATGATCTAAGTCCGCGTTTATATTCAAAC TCAGAGTTGTGGGATCAAGAAGATGGAATTGGATTCGAGGATAATGAGCTGTATAATGAT TCAAATCAAATAGGATCCTCCACAACGCCTGTCTCTAGCTATATGGGATTCGAGCAGATG AACTTATCTGGTGAGAAGTCCACTATTTCACTTTCAGATATTGGAGATAATAACGGACTC GGCTCGTTAGAATCCCATCCTGCTGGAGAACTTCCGAACTTTGACACTTTGATGTCAACA AGTAATCATCAAAATAGAGATGCGCTCATTCCACAAAATCCAATCAATTTATCACCAGTT GTAGATCAGATGCCGCCGCCACCTCCTCTTCCCCCAATGCAGTGGAGGACAATGAGACAA ACAACTTCCCTAGAAGAAGAAAGAGACTCTACGGCTAAAGACATGCTTGAGAATGCCTCA AGTCTACCACCTGTACACACTCCTGTGCAGGAACAACATCTTCCACCGTGTGCACCACCA TTTCCACAAGGAAATGTTAAGGAAGTGAACCATCAGAAAGTTGATGTGATCAAAGAAACG AGTAATCTTCCTAATATATTTGAGATCAAATCAAGCTTGCTTCAGCAAATCAGGGATAAG CCAGATCTGCACAAGCTGAATGGACATGAAAAGTCCAAAGCAGTATTCAGTGATGTTAAC AGTTTGGATGAAAGGGGGGAGTTGCTTCAGCAAATCAGGAGCAAGACATTCAACTTAAGA CGAACAAATGGATCTAAGACAAACACCTCATCGCAGTCAACCGAGTCCACTGCCAATTCC AGCGTTGTAGCAATTTTGGAGAAGGCGAATGCAATCCGACAGGCTGTGGCCAGTGACGAG GGGGGTGATGATGATAACTGGAGCGATATCAACTGAGAATGCATATGCCAAACCTTTTCT GTATATGCAACTAGTACAAGATGAAGAGTGAAAATGTGAATAACACCTTTTTCTTCATTG TAATTAGATATTGCAGCTCTGTTTTTTAACCTTTTTTTAGTTCATGGTAGTGTATCTTAG ATCCCTATGGTTGTAGAGATGTTAAATCATTTCAACATCATGTAAATTTATCTTATTATT TATTAATGGTAGTGAGATGGACTAATAAAATAAGTATGTTAAGCTATCTTTTGTAGCATT GTACTAAAAATTGTCTCTTTGCATTGTTAATAAGATGGGGGCATACTGATAAAAAAGTTA TGCTGTCATTTGCAAGCATGCTATTTTTTTTGGCGAAGGCAAAATAATTCTTAAGAAATC TCGCTGCATTACCTCCATGCTTTGTATTTGAGTAGCAAAATCTAAATCAGGAGATGCAAT TGATTTTTCTTCAAGTTAGTCAATATATCATGTAAGAG
Protein Sequence (1134 aa)
>BART1_0-u19238.005 1134 150831_barley_pseudomolecules MSRPTTTLPSRQRYSDPSYFKKSWDVMRADKTAHLQKERRSHKIKRKGSRLKEPYHGQAT SRHRNGELQRALTAVQLTSSRQCASPSMDGQSFSEHRSTSDARSNPDNISRSSSFSSKAR LSFAEQASDTKPSVIPHENGHAKLSNIDMHKLNDASSPVLLSETREDDLGDDLKQGSLSD EMNARSPSVEWHEKAAIVMTTSSVYCDDVVMDRAENAETKHIKPVQREVDYREMQTLEQQ GALLQKAKLLLLSSGLNHRDEVPCETDNYMDALNTLESETETEVDSQTKKQGKPVHSFNA HAPQIELTDNAVSQLPDSSPVEFPDTSPNSRMLHTFERSADFPSLSSADAPDISQHSLSG YTDIHPNEWSSVTTIPENNANNAAGDPTEISEPALQAYTPTPPNQRCPRANEIPESKAEV IPRDSPVISKPELSTYAVFPPNKESIVSQIPENSVEGVSEDDTNEITSCLVPEPSISFAP TSEASPAKILPGYNTGNSVISERSPQDYPGENHQEFGGCGMAEVSNSQTMPLNESSENGS ATQHLPTHAPTSSQHLPTHAPTSSVELSSVKLWTNAGLFGLEPSKPPVGICPGSANQSYP ENNQSATRTPDAVYSQTNRPSDSSTYFEHREHSNLNGKQASISELLESEGNAEIGAETYS GTDLVGRNNLPVVSASSFSSIAQRFLANTLQRRTSPKYNDLPMSSGRVNTDTNGFDEATV NSTLAPKETVFEASQFEKKTDYGVDGLPKSSSCHYSEKSSPPLEHMKISFHPMSASEMSK LNLDFSDGNLHENVDDMMLPTFQLLPGSSVPQPGSGSESEDDTFGRSYSYSSYDDLSPRL YSNSELWDQEDGIGFEDNELYNDSNQIGSSTTPVSSYMGFEQMNLSGEKSTISLSDIGDN NGLGSLESHPAGELPNFDTLMSTSNHQNRDALIPQNPINLSPVVDQMPPPPPLPPMQWRT MRQTTSLEEERDSTAKDMLENASSLPPVHTPVQEQHLPPCAPPFPQGNVKEVNHQKVDVI KETSNLPNIFEIKSSLLQQIRDKPDLHKLNGHEKSKAVFSDVNSLDERGELLQQIRSKTF NLRRTNGSKTNTSSQSTESTANSSVVAILEKANAIRQAVASDEGGDDDNWSDIN