- Transcript BART1_0-u19238.008
- Transcript IDBART1_0-u19238.008
- Gene IDBART1_0-u19238
Barley RTD
Exon Structure of BART1_0-u19238.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 133980544 | 133980061 | - |
| chr3H | 2 | 133980745 | 133980629 | - |
| chr3H | 3 | 133980989 | 133980885 | - |
| chr3H | 4 | 133981597 | 133981505 | - |
| chr3H | 5 | 133984488 | 133981692 | - |
| chr3H | 6 | 133984718 | 133984615 | - |
| chr3H | 7 | 133985370 | 133985055 | - |
| chr3H | 8 | 133985932 | 133985769 | - |
| chr3H | 9 | 133986770 | 133986152 | - |
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 | 0.000000000552379 | 0 | 0 |
| morex | LEA | 0 | 0.00313242 | 0.126914 |
| morex | EPI | 0 | 0.293409 | 0 |
| morex | ROO | 0 | 0 | 0.0974014 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.304193 | 0.000000113634 | 0 |
| morex | RAC | 0.237767 | 0 | 0.000000000173389 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.0639373 | 0 | 0.213546 |
| morex | LOD | 0.0650128 | 0 | 0.0031195 |
| morex | PAL | 0 | 0 | 0.165789 |
| morex | SEN | 0.000000193883 | 0.00000132813 | 0.00000992625 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g11040.1 | +2 | 0.0 | 1131 | 742/1202 (62%) | protein|SCAR-like protein 2, putative, expressed |
| TAIR PP10 | AT2G38440 @ ARAPORT AT2G38440.1 @ TAIR |
+3 | 3e-36 | 120 | 56/98 (57%) | Symbols: ITB1, SCAR2, DIS3, WAVE4, ATSCAR2 | SCAR homolog 2 | chr2:16095550-16100851 FORWARD LENGTH=1399 |
| BRACH PP3 | Bradi2g06610.2.p | +2 | 0.0 | 1273 | 784/1211 (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 (4799 bp)
>BART1_0-u19238.008 4799 150831_barley_pseudomolecules CACGGCTGAGCTGCGACCCGTGACGGCGGAACCATGCTCGCGTTTGTTGCAACTGTTGAC AGAAAAAGCTTCAACGGTATATGAAAGATGTTTCAACCGGCAATAGAGAAAGCTTCAACC AGGGGCTCCGTCCATCCATTTAACTCCACTCCGACGAGGCGAACCTCCACCCTGAAAGCT GCAACCAGCTGATCGAAAAGCTGCAGCCGTCGTCTAATTTTGTTACTACTGGCAACGGAT TTTGCTACATCTGTCATGGCGGAGCTGCGGCCTACTACGGTGATGGCTTTTTTTTGTTGC AACCGTCCCTCGGATTTGCTACAACCGGAGAGGTATTTTGCTACATGCATCATGGCGGAG CTGGGATCGATGGCGAGGGCCGCGACCGACGGCGAGGGGGCTGCGACCAGTGATGACTGG CGGTGAGAGAAGATGAGGAGGCGAGGCGTGGGGTGCAGCGTGTGCGGGGGCGGCACCCTC CTTTTTCTCTCTTTCTTCCGTGTGGGAGGTTGAAGATGGGATGCGGAAGAGGAGGGGGGA GATCTGACGGCTACACGCGTGCAAATCGGACTGATCCGGGCTGACCGGCCGAAACATTGG GCCGGCGCGCCGACGCAGAATTTGCGGCAGATATTTTTCATGACCTACACGAGCAAGTTA TAACTACATCGTCTAGGGGGCGTAAGGTGTTGACTCGAGTACAGAACATTGAAGCAGCAC TTCCATCTCTTGAAAAAGCTGTGAAGAATCAGAAGAGCCATATACATTTTGCTTATGTAC CAGGTTCTGACTGGCACACACAACTTCAAAATGAGCAAAATCATCTCCTATCCAGTGATC TGCCTCGGTTTATGATGGATTCCTATGAAGAATGTCGAGACCCACCACGACTTTACCTTC TCGACAAGTAAGGATGCTTGTTTTTTTTTTTCAAGTGATTTTGGGTCTCTAATGACTTAT TTTCAGATTTGATAATGCTGGTGCTGGGGCTTGTTTGAAGAGATATTCTGATCCATCTTA CTTCAAGAAATCATGGGATGTGATGAGAGCAGACAAGACTGCACATCTCCAAAAAGAAAG GAGATCTCATAAAATCAAGAGGAAAGGATCACGCCTAAAAGAACCATATCATGGACAAGC CACATCCAGGCATAGGAATGGTGAATTGCAGCGAGCACTCACTGCTGTTCAACTCACCAG CAGCAGGCAGTGTGCATCTCCCAGCATGGATGGCCAGAGTTTTTCGGAGCATAGATCTAC ATCTGATGCAAGATCCAACCCTGACAATATAAGCAGATCTTCTTCATTTAGTTCAAAGGC ACGACTGAGTTTTGCAGAACAAGCTTCAGATACAAAGCCTTCTGTAATTCCTCATGAGAA TGGTCATGCCAAGCTGTCAAATATTGATATGCACAAGCTTAATGATGCCTCTTCCCCCGT CTTGCTTAGCGAGACCAGGGAAGATGATCTGGGTGATGATTTGAAGCAAGGTTCCCTGTC AGATGAGATGAATGCTAGGTCACCTTCTGTTGAATGGCATGAAAAGGCTGCAATTGTCAT GACTACAAGTTCTGTCTACTGTGATGATGTTGTCATGGATAGGGCTGAAAATGCAGAAAC TAAACATATTAAGCCCGTGCAGCGAGAAGTTGATTATAGGGAGATGCAGACCTTGGAGCA GCAAGGGGCCTTACTTCAGAAGGCAAAGTTGTTATTACTGTCATCAGGCTTAAACCACCG TGATGAAGTCCCCTGTGAAACAGACAACTACATGGATGCACTTAACACACTTGAATCTGA GACAGAGACTGAAGTTGACTCTCAAACTAAAAAACAAGGGAAGCCAGTACATTCCTTCAA TGCTCATGCACCTCAAATAGAGTTGACAGATAATGCCGTTTCACAGCTTCCTGATTCTTC TCCTGTTGAGTTTCCTGATACAAGTCCAAATTCCAGAATGTTACATACTTTTGAAAGAAG TGCCGATTTCCCCAGTTTGTCAAGTGCAGATGCTCCGGATATTTCACAGCATTCATTGTC AGGTTATACAGATATACATCCTAATGAATGGTCATCTGTTACCACCATCCCTGAGAATAA TGCAAATAATGCTGCTGGAGACCCCACTGAAATTTCAGAACCGGCACTGCAAGCATATAC ACCTACACCACCCAATCAAAGGTGCCCTCGTGCAAATGAGATTCCTGAGAGTAAGGCAGA AGTTATCCCCAGAGATTCTCCTGTGATCTCAAAACCAGAGCTGTCAACCTATGCAGTTTT CCCTCCCAATAAAGAGTCTATTGTCAGTCAGATCCCTGAGAATAGTGTAGAAGGTGTGTC AGAAGATGATACCAATGAAATCACTAGTTGTCTTGTACCGGAACCTTCCATTTCCTTTGC TCCAACTAGTGAGGCGTCTCCTGCAAAAATCTTACCTGGTTATAACACTGGTAACTCTGT AATTTCGGAAAGGAGTCCTCAGGATTATCCTGGAGAAAATCATCAGGAATTTGGTGGCTG TGGCATGGCTGAAGTGTCTAATTCACAGACCATGCCTTTGAACGAGTCATCAGAGAATGG ATCTGCAACCCAACACCTTCCCACACATGCTCCTACTAGTTCCCAACACCTTCCCACACA TGCTCCGACTAGTTCTGTAGAATTATCTTCTGTTAAGCTCTGGACAAATGCTGGTCTCTT CGGACTTGAACCGTCTAAACCTCCAGTTGGCATATGTCCAGGTTCTGCAAACCAAAGCTA CCCAGAGAATAATCAATCAGCCACAAGAACACCTGATGCAGTTTATAGCCAAACAAACCG GCCCTCAGATTCTTCCACATATTTCGAGCACAGGGAGCACAGCAATTTGAATGGCAAGCA AGCTTCAATAAGTGAGCTCCTAGAATCTGAAGGTAATGCTGAAATTGGTGCTGAAACATA CTCTGGCACTGACTTGGTTGGAAGGAATAACTTGCCCGTGGTGTCTGCATCAAGCTTCTC GAGCATTGCACAAAGATTCCTTGCCAATACACTTCAGAGAAGAACTTCTCCCAAATATAA TGATCTTCCTATGTCATCTGGGAGAGTGAATACTGACACAAATGGGTTTGATGAAGCTAC TGTAAATTCTACTCTTGCACCAAAGGAAACAGTATTCGAGGCATCTCAGTTTGAGAAGAA AACAGATTATGGCGTGGATGGACTGCCCAAGTCCTCTAGTTGCCATTACTCTGAGAAATC ATCTCCGCCACTAGAGCATATGAAAATATCCTTTCACCCCATGAGTGCATCTGAAATGTC GAAATTGAACCTAGATTTTTCTGATGGCAATCTTCATGAAAATGTTGATGATATGATGTT ACCAACATTTCAGTTACTTCCAGGGTCTTCTGTCCCACAGCCTGGCAGTGGTTCTGAATC AGAAGATGACACCTTTGGTAGATCTTATAGTTATTCTTCATATGATGATCTAAGTCCGCG TTTATATTCAAACTCAGAGTTGTGGGATCAAGAAGATGGAATTGGATTCGAGGATAATGA GCTGTATAATGATTCAAATCAAATAGGATCCTCCACAACGCCTGTCTCTAGCTATATGGG ATTCGAGCAGATGAACTTATCTGGTGAGAAGTCCACTATTTCACTTTCAGATATTGGAGA TAATAACGGACTCGGCTCGTTAGAATCCCATCCTGCTGGAGAACTTCCGAACTTTGACAC TTTGATGTCAACAAGTAATCATCAAAATAGAGATGCGCTCATTCCACAAAATCCAATCAA TTTATCACCAGTTGTAGATCAGATGCCGCCGCCACCTCCTCTTCCCCCAATGCAGTGGAG GACAATGAGACAAACAACTTCCCTAGAAGAAGAAAGAGACTCTACGGCTAAAGACATGCT TGAGAATGCCTCAAGTCTACCACCTGTACACACTCCTGTGCAGGAACAACATCTTCCACC GTGTGCACCACCATTTCCACAAGGAAATGTTAAGGAAGTGAACCATCAGAAAGTTGATGT GATCAAAGAAACGAGTAATCTTCCTAATATATTTGAGATCAAATCAAGCTTGCTTCAGCA AATCAGGGATAAGCCAGATCTGCACAAGCTGAATGGACATGAAAAGTCCAAAGCAGTATT CAGTGATGTTAACAGTTTGGATGAAAGGGGGGAGTTGCTTCAGCAAATCAGGAGCAAGAC ATTCAACTTAAGACGAACAAATGGATCTAAGACAAACACCTCATCGCAGTCAACCGAGTC CACTGCCAATTCCAGCGTTGTAGCAATTTTGGAGAAGGCGAATGCAATCCGACAGGCTGT GGCCAGTGACGAGGGGGGTGATGATGATAACTGGAGCGATATCAACTGAGAATGCATATG CCAAACCTTTTCTGTATATGCAACTAGTACAAGATGAAGAGTGAAAATGTGAATAACACC TTTTTCTTCATTGTAATTAGATATTGCAGCTCTGTTTTTTAACCTTTTTTTAGTTCATGG TAGTGTATCTTAGATCCCTATGGTTGTAGAGATGTTAAATCATTTCAACATCATGTAAAT TTATCTTATTATTTATTAATGGTAGTGAGATGGACTAATAAAATAAGTATGTTAAGCTAT CTTTTGTAGCATTGTACTAAAAATTGTCTCTTTGCATTGTTAATAAGATGGGGGCATACT GATAAAAAAGTTATGCTGTCATTTGCAAGCATGCTATTTTTTTTGGCGAAGGCAAAATAA TTCTTAAGAAATCTCGCTGCATTACCTCCATGCTTTGTATTTGAGTAGCAAAATCTAAA
Protein Sequence (1108 aa)
>BART1_0-u19238.008 1108 150831_barley_pseudomolecules MRADKTAHLQKERRSHKIKRKGSRLKEPYHGQATSRHRNGELQRALTAVQLTSSRQCASP SMDGQSFSEHRSTSDARSNPDNISRSSSFSSKARLSFAEQASDTKPSVIPHENGHAKLSN IDMHKLNDASSPVLLSETREDDLGDDLKQGSLSDEMNARSPSVEWHEKAAIVMTTSSVYC DDVVMDRAENAETKHIKPVQREVDYREMQTLEQQGALLQKAKLLLLSSGLNHRDEVPCET DNYMDALNTLESETETEVDSQTKKQGKPVHSFNAHAPQIELTDNAVSQLPDSSPVEFPDT SPNSRMLHTFERSADFPSLSSADAPDISQHSLSGYTDIHPNEWSSVTTIPENNANNAAGD PTEISEPALQAYTPTPPNQRCPRANEIPESKAEVIPRDSPVISKPELSTYAVFPPNKESI VSQIPENSVEGVSEDDTNEITSCLVPEPSISFAPTSEASPAKILPGYNTGNSVISERSPQ DYPGENHQEFGGCGMAEVSNSQTMPLNESSENGSATQHLPTHAPTSSQHLPTHAPTSSVE LSSVKLWTNAGLFGLEPSKPPVGICPGSANQSYPENNQSATRTPDAVYSQTNRPSDSSTY FEHREHSNLNGKQASISELLESEGNAEIGAETYSGTDLVGRNNLPVVSASSFSSIAQRFL ANTLQRRTSPKYNDLPMSSGRVNTDTNGFDEATVNSTLAPKETVFEASQFEKKTDYGVDG LPKSSSCHYSEKSSPPLEHMKISFHPMSASEMSKLNLDFSDGNLHENVDDMMLPTFQLLP GSSVPQPGSGSESEDDTFGRSYSYSSYDDLSPRLYSNSELWDQEDGIGFEDNELYNDSNQ IGSSTTPVSSYMGFEQMNLSGEKSTISLSDIGDNNGLGSLESHPAGELPNFDTLMSTSNH QNRDALIPQNPINLSPVVDQMPPPPPLPPMQWRTMRQTTSLEEERDSTAKDMLENASSLP PVHTPVQEQHLPPCAPPFPQGNVKEVNHQKVDVIKETSNLPNIFEIKSSLLQQIRDKPDL HKLNGHEKSKAVFSDVNSLDERGELLQQIRSKTFNLRRTNGSKTNTSSQSTESTANSSVV AILEKANAIRQAVASDEGGDDDNWSDIN