- Transcript BART1_0-u19238.001
- Transcript IDBART1_0-u19238.001
- Gene IDBART1_0-u19238
Barley RTD
Exon Structure of BART1_0-u19238.001
| 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 | 133985370 | 133985055 | - |
| chr3H | 8 | 133985932 | 133985769 | - |
| chr3H | 9 | 133988910 | 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 | 0 | 0 |
| morex | ETI | 0.000000687298 | 0 | 0.0000000439483 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.000252064 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0.000000140926 | 0.00000308978 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.0000000101949 | 0 | 0.000162521 |
| morex | LOD | 0.0896893 | 0.0000208123 | 0.00000486954 |
| morex | PAL | 0 | 0.0000164498 | 0 |
| morex | SEN | 0 | 0.575869 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g11040.1 | +3 | 0.0 | 1135 | 742/1201 (62%) | protein|SCAR-like protein 2, putative, expressed |
| TAIR PP10 | AT2G38440 @ ARAPORT AT2G38440.1 @ TAIR |
+1 | 5e-48 | 159 | 86/161 (53%) | Symbols: ITB1, SCAR2, DIS3, WAVE4, ATSCAR2 | SCAR homolog 2 | chr2:16095550-16100851 FORWARD LENGTH=1399 |
| BRACH PP3 | Bradi2g06610.2.p | +3 | 0.0 | 1278 | 784/1210 (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 (5101 bp)
>BART1_0-u19238.001 5101 150831_barley_pseudomolecules CGCACACACATGCATGCATTTTTTACGCGCAGTTGACGTGACCACACCGCAACGCAAAGC ACAGAAGGCATGTTCCAACCCCCGGCACAAAAACGAAAAGACACCCCGAGGAAGTGAAAA CCAAGAAGGGCCAAGCACGGCCGGAAATGGCAAAGCACCCCCGGCCCCCGCGCGACCCAG CACAGCACAGCACAGCACAGCACAGCAGCCTCCCACCACAACATAGCGGCGGCACCGGGT ATCGAGCATCCAAATCCAAGCCGAGCCCGAGAGCTGAAGCATAATCACGCGGCGCACACC ACTCACCAGTCGCCAGGCCGCGCCACTTGCCCACCCCCCTCGTGCCCGCAGCGCTGCGTG CGCTTCCCTTTCCCACCGTCCCTTTCGCCCCGCACCCTGTCGGAGACCGACGCTCCTCCC CTCCCCTCCCCGTCCCCGTCCCCGCCACGCGCCTCGGCGTCGCCTCCACTCCTCCCCCCC TCCCCGCCACTCGCCTCGGCCGCCCCCTTCCGTGCGGAGGCGGCAACCTGTGACGCCCCA AAGTCGGCGCACCTGCTCCCACTGGGAAAGTAGCCGTTGCGGCGTCGCATTTATAGCGAC CGCCAGGCGTCACGATGGCCGCTGCTCGGCGGTGAGGAGGAGCCCGCTCTCGCGCGCTCG GTGGTTGGTGGAGCGGAGATGCCGCTGGTCAGGTTCGAGGTGCGGAATGAGGTCGGGCTG GGCGACCCCGGGCTGTACGGCGCCGCGGGGGCAGGGAAGCGAGGCGGCGCCGGCGCCGCC GCCGCAGGGGAGGCCGAGCCCAAGGCGCTGCTCGAGGGCGTCGCCGTCGCGGGCCTCGTC GGGATCCTGCGCCAGCTCGGAGATCTCGCCGAATTTGCGGCAGATATTTTTCATGACCTA CACGAGCAAGTTATAACTACATCGTCTAGGGGGCGTAAGGTGTTGACTCGAGTACAGAAC ATTGAAGCAGCACTTCCATCTCTTGAAAAAGCTGTGAAGAATCAGAAGAGCCATATACAT TTTGCTTATGTACCAGGTTCTGACTGGCACACACAACTTCAAAATGAGCAAAATCATCTC CTATCCAGTGATCTGCCTCGGTTTATGATGGATTCCTATGAAGAATGTCGAGACCCACCA CGACTTTACCTTCTCGACAAGTAAGGATGCTTGTTTTTTTTTTTCAAGTGATTTTGGGTC TCTAATGACTTATTTTCAGATTTGATAATGCTGGTGCTGGGGCTTGTTTGAAGAGATATT CTGATCCATCTTACTTCAAGAAATCATGGGATGTGATGAGAGCAGACAAGACTGCACATC TCCAAAAAGAAAGGAGATCTCATAAAATCAAGAGGAAAGGATCACGCCTAAAAGAACCAT ATCATGGACAAGCCACATCCAGGCATAGGAATGGTGAATTGCAGCGAGCACTCACTGCTG TTCAACTCACCAGCAGGCAGTGTGCATCTCCCAGCATGGATGGCCAGAGTTTTTCGGAGC ATAGATCTACATCTGATGCAAGATCCAACCCTGACAATATAAGCAGATCTTCTTCATTTA GTTCAAAGGCACGACTGAGTTTTGCAGAACAAGCTTCAGATACAAAGCCTTCTGTAATTC CTCATGAGAATGGTCATGCCAAGCTGTCAAATATTGATATGCACAAGCTTAATGATGCCT CTTCCCCCGTCTTGCTTAGCGAGACCAGGGAAGATGATCTGGGTGATGATTTGAAGCAAG GTTCCCTGTCAGATGAGATGAATGCTAGGTCACCTTCTGTTGAATGGCATGAAAAGGCTG CAATTGTCATGACTACAAGTTCTGTCTACTGTGATGATGTTGTCATGGATAGGGCTGAAA ATGCAGAAACTAAACATATTAAGCCCGTGCAGCGAGAAGTTGATTATAGGGAGATGCAGA CCTTGGAGCAGCAAGGGGCCTTACTTCAGAAGGCAAAGTTGTTATTACTGTCATCAGGCT TAAACCACCGTGATGAAGTCCCCTGTGAAACAGACAACTACATGGATGCACTTAACACAC TTGAATCTGAGACAGAGACTGAAGTTGACTCTCAAACTAAAAAACAAGGGAAGCCAGTAC ATTCCTTCAATGCTCATGCACCTCAAATAGAGTTGACAGATAATGCCGTTTCACAGCTTC CTGATTCTTCTCCTGTTGAGTTTCCTGATACAAGTCCAAATTCCAGAATGTTACATACTT TTGAAAGAAGTGCCGATTTCCCCAGTTTGTCAAGTGCAGATGCTCCGGATATTTCACAGC ATTCATTGTCAGGTTATACAGATATACATCCTAATGAATGGTCATCTGTTACCACCATCC CTGAGAATAATGCAAATAATGCTGCTGGAGACCCCACTGAAATTTCAGAACCGGCACTGC AAGCATATACACCTACACCACCCAATCAAAGGTGCCCTCGTGCAAATGAGATTCCTGAGA GTAAGGCAGAAGTTATCCCCAGAGATTCTCCTGTGATCTCAAAACCAGAGCTGTCAACCT ATGCAGTTTTCCCTCCCAATAAAGAGTCTATTGTCAGTCAGATCCCTGAGAATAGTGTAG AAGGTGTGTCAGAAGATGATACCAATGAAATCACTAGTTGTCTTGTACCGGAACCTTCCA TTTCCTTTGCTCCAACTAGTGAGGCGTCTCCTGCAAAAATCTTACCTGGTTATAACACTG GTAACTCTGTAATTTCGGAAAGGAGTCCTCAGGATTATCCTGGAGAAAATCATCAGGAAT TTGGTGGCTGTGGCATGGCTGAAGTGTCTAATTCACAGACCATGCCTTTGAACGAGTCAT CAGAGAATGGATCTGCAACCCAACACCTTCCCACACATGCTCCTACTAGTTCCCAACACC TTCCCACACATGCTCCGACTAGTTCTGTAGAATTATCTTCTGTTAAGCTCTGGACAAATG CTGGTCTCTTCGGACTTGAACCGTCTAAACCTCCAGTTGGCATATGTCCAGGTTCTGCAA ACCAAAGCTACCCAGAGAATAATCAATCAGCCACAAGAACACCTGATGCAGTTTATAGCC AAACAAACCGGCCCTCAGATTCTTCCACATATTTCGAGCACAGGGAGCACAGCAATTTGA ATGGCAAGCAAGCTTCAATAAGTGAGCTCCTAGAATCTGAAGGTAATGCTGAAATTGGTG CTGAAACATACTCTGGCACTGACTTGGTTGGAAGGAATAACTTGCCCGTGGTGTCTGCAT CAAGCTTCTCGAGCATTGCACAAAGATTCCTTGCCAATACACTTCAGAGAAGAACTTCTC CCAAATATAATGATCTTCCTATGTCATCTGGGAGAGTGAATACTGACACAAATGGGTTTG ATGAAGCTACTGTAAATTCTACTCTTGCACCAAAGGAAACAGTATTCGAGGCATCTCAGT TTGAGAAGAAAACAGATTATGGCGTGGATGGACTGCCCAAGTCCTCTAGTTGCCATTACT CTGAGAAATCATCTCCGCCACTAGAGCATATGAAAATATCCTTTCACCCCATGAGTGCAT CTGAAATGTCGAAATTGAACCTAGATTTTTCTGATGGCAATCTTCATGAAAATGTTGATG ATATGATGTTACCAACATTTCAGTTACTTCCAGGGTCTTCTGTCCCACAGCCTGGCAGTG GTTCTGAATCAGAAGATGACACCTTTGGTAGATCTTATAGTTATTCTTCATATGATGATC TAAGTCCGCGTTTATATTCAAACTCAGAGTTGTGGGATCAAGAAGATGGAATTGGATTCG AGGATAATGAGCTGTATAATGATTCAAATCAAATAGGATCCTCCACAACGCCTGTCTCTA GCTATATGGGATTCGAGCAGATGAACTTATCTGGTGAGAAGTCCACTATTTCACTTTCAG ATATTGGAGATAATAACGGACTCGGCTCGTTAGAATCCCATCCTGCTGGAGAACTTCCGA ACTTTGACACTTTGATGTCAACAAGTAATCATCAAAATAGAGATGCGCTCATTCCACAAA ATCCAATCAATTTATCACCAGTTGTAGATCAGATGCCGCCGCCACCTCCTCTTCCCCCAA TGCAGTGGAGGACAATGAGACAAACAACTTCCCTAGAAGAAGAAAGAGACTCTACGGCTA AAGACATGCTTGAGAATGCCTCAAGTCTACCACCTGTACACACTCCTGTGCAGGAACAAC ATCTTCCACCGTGTGCACCACCATTTCCACAAGGAAATGTTAAGGAAGTGAACCATCAGA AAGTTGATGTGATCAAAGAAACGAGTAATCTTCCTAATATATTTGAGATCAAATCAAGCT TGCTTCAGCAAATCAGGGATAAGCCAGATCTGCACAAGCTGAATGGACATGAAAAGTCCA AAGCAGTATTCAGTGATGTTAACAGTTTGGATGAAAGGGGGGAGTTGCTTCAGCAAATCA GGAGCAAGACATTCAACTTAAGACGAACAAATGGATCTAAGACAAACACCTCATCGCAGT CAACCGAGTCCACTGCCAATTCCAGCGTTGTAGCAATTTTGGAGAAGGCGAATGCAATCC GACAGGCTGTGGCCAGTGACGAGGGGGGTGATGATGATAACTGGAGCGATATCAACTGAG AATGCATATGCCAAACCTTTTCTGTATATGCAACTAGTACAAGATGAAGAGTGAAAATGT GAATAACACCTTTTTCTTCATTGTAATTAGATATTGCAGCTCTGTTTTTTAACCTTTTTT TAGTTCATGGTAGTGTATCTTAGATCCCTATGGTTGTAGAGATGTTAAATCATTTCAACA TCATGTAAATTTATCTTATTATTTATTAATGGTAGTGAGATGGACTAATAAAATAAGTAT GTTAAGCTATCTTTTGTAGCATTGTACTAAAAATTGTCTCTTTGCATTGTTAATAAGATG GGGGCATACTGATAAAAAAGTTATGCTGTCATTTGCAAGCATGCTATTTTTTTTGGCGAA GGCAAAATAATTCTTAAGAAATCTCGCTGCATTACCTCCATGCTTTGTATTTGAGTAGCA AAATCTAAATCAGGAGATGCAATTGATTTTTCTTCAAGTTAGTCAATATATCATGTAAGA G
Protein Sequence (1107 aa)
>BART1_0-u19238.001 1107 150831_barley_pseudomolecules MRADKTAHLQKERRSHKIKRKGSRLKEPYHGQATSRHRNGELQRALTAVQLTSRQCASPS MDGQSFSEHRSTSDARSNPDNISRSSSFSSKARLSFAEQASDTKPSVIPHENGHAKLSNI DMHKLNDASSPVLLSETREDDLGDDLKQGSLSDEMNARSPSVEWHEKAAIVMTTSSVYCD DVVMDRAENAETKHIKPVQREVDYREMQTLEQQGALLQKAKLLLLSSGLNHRDEVPCETD NYMDALNTLESETETEVDSQTKKQGKPVHSFNAHAPQIELTDNAVSQLPDSSPVEFPDTS PNSRMLHTFERSADFPSLSSADAPDISQHSLSGYTDIHPNEWSSVTTIPENNANNAAGDP TEISEPALQAYTPTPPNQRCPRANEIPESKAEVIPRDSPVISKPELSTYAVFPPNKESIV SQIPENSVEGVSEDDTNEITSCLVPEPSISFAPTSEASPAKILPGYNTGNSVISERSPQD YPGENHQEFGGCGMAEVSNSQTMPLNESSENGSATQHLPTHAPTSSQHLPTHAPTSSVEL SSVKLWTNAGLFGLEPSKPPVGICPGSANQSYPENNQSATRTPDAVYSQTNRPSDSSTYF EHREHSNLNGKQASISELLESEGNAEIGAETYSGTDLVGRNNLPVVSASSFSSIAQRFLA NTLQRRTSPKYNDLPMSSGRVNTDTNGFDEATVNSTLAPKETVFEASQFEKKTDYGVDGL PKSSSCHYSEKSSPPLEHMKISFHPMSASEMSKLNLDFSDGNLHENVDDMMLPTFQLLPG SSVPQPGSGSESEDDTFGRSYSYSSYDDLSPRLYSNSELWDQEDGIGFEDNELYNDSNQI GSSTTPVSSYMGFEQMNLSGEKSTISLSDIGDNNGLGSLESHPAGELPNFDTLMSTSNHQ NRDALIPQNPINLSPVVDQMPPPPPLPPMQWRTMRQTTSLEEERDSTAKDMLENASSLPP VHTPVQEQHLPPCAPPFPQGNVKEVNHQKVDVIKETSNLPNIFEIKSSLLQQIRDKPDLH KLNGHEKSKAVFSDVNSLDERGELLQQIRSKTFNLRRTNGSKTNTSSQSTESTANSSVVA ILEKANAIRQAVASDEGGDDDNWSDIN