- Transcript BART1_0-u53703.001
- Transcript IDBART1_0-u53703.001
- Gene IDBART1_0-u53703
Barley RTD
Exon Structure of BART1_0-u53703.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 385862497 | 385861564 | - |
| chr7H | 2 | 385863972 | 385862587 | - |
| chr7H | 3 | 385864284 | 385864078 | - |
| chr7H | 4 | 385865991 | 385865930 | - |
| chr7H | 5 | 385866338 | 385866227 | - |
| chr7H | 6 | 385866611 | 385866409 | - |
| chr7H | 7 | 385867084 | 385867000 | - |
| chr7H | 8 | 385867226 | 385867200 | - |
| chr7H | 9 | 385867533 | 385867389 | - |
| chr7H | 10 | 385872394 | 385872313 | - |
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 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0.492969 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.0370979 | 0 | 0.179202 |
| morex | NOD | 0 | 1.02702 | 0.992617 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.202541 | 0.00000047953 | 0 |
| morex | LOD | 0 | 0 | 0.103599 |
| morex | PAL | 0 | 0.0364843 | 0 |
| morex | SEN | 0.28866 | 0 | 0.000000000369344 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g06110.2 | +3 | 0.0 | 878 | 526/725 (73%) | protein|MYB family transcription factor, putative, expressed |
| TAIR PP10 | AT2G46830 @ ARAPORT AT2G46830.1 @ TAIR |
+3 | 4e-38 | 152 | 71/91 (78%) | Symbols: CCA1 | circadian clock associated 1 | chr2:19246005-19248717 FORWARD LENGTH=608 |
| BRACH PP3 | Bradi3g16515.1.p | +3 | 0.0 | 936 | 559/722 (77%) | pacid=32817815 transcript=Bradi3g16515.1 locus=Bradi3g16515 ID=Bradi3g16515.1.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 (3243 bp)
>BART1_0-u53703.001 3243 150831_barley_pseudomolecules CTCCCGGTTGGCTTCGTCCGGAAGCATCGGCCGGTGGCGGCAGAGAGAGGAGCTCCTGCG CCCGGCGCGGCGGTCGGTTGAGGTGTAGGAAGTGTTAAGGGGATACATAATCGGTTTTGA GCTGCGAGGCCCTGCATTTCTTCTGCCTGCTGTTTGATTCACGGCCCACTCTTTTCCTTC TATCCATTCAAGCAAAGTACTGGAATTTCTGAGCCCAATTTATTCAGGTCATGGGATTTG TTTGTCCTTAGCAGAGTTGAAGATAAAGAGAGGAAGGCTAAACTCTGCTGATCCGGTTCA TGCGAGCAATGAGCCAACTGCAGTAGAGGTTTACAGTAGAGAGGTTTAGGGGGAGGTATG AGATACTACTCGCGTCAGGTCCAGCGTTTGGCTGGAGACACAGAAGGAGGAGTGCTGTTG TTTGTAGACGCCCTCAACTCCAAGTAACAAAGCGACCAGTTGTCAGCACTTCCTTTTGTT TTCGCATTTCCCTGGAATTGGAGATGGAGATAAATTCTTCGGGTGAGGAAACGGTGATAA AGGTGCGAAAGCCGTACACAATAACAAAACAGCGGGAGCGGTGGACTGAGGCAGAGCACA AACGGTTCCTTGAAGCCCTCAAACTGTATGGCAGAGCTTGGCAGCGCATAGAAGAGCATG TTGGGACAAAGACGGCCGTGCAAATCAGAAGCCATGCTCAGAAGTTCTTCACAAAGTTGG AAAAGGAAGCTATCAACAATGGTACTTCTCCAGGACAAGCTCATGATATAGACATACCTC CACCACGGCCTAAAAGAAAACCTAACTGTCCATATCCTCGAAAAGGTTGTCTCAGCTCTG AGACACCCACCAGAGAAGTTCCAAAATCAAGTGTTAGCTTGAGCAATAGCAATTCACAAA TGGAAAGCAATGGAACTCTTCAGGTCACCAGCACTCAGAAACTTCAAAGGAAGGAGTTGT CTGGAAACGGCAGTTGCTCAGAAGTTATTAATATCTTTAGAGAAGCACCATCTGCCTCAT TTTCTTCCTCTAACAAGAGCTCTTCAAATCATGGTGTCTCTGGGGGAATTGAACCGACTA AAACAGAAATCAAAGATATGGCAGCCATGGAAAGGAAATCTACTTCCGTTGATGTGGCGA AGGATGTAAAAGATATTAATGACCAGGAAATGGAAAGGAACAACAGAGTCCACATCAGTT CTAAATATGACCGTTCTCATGAAGATTGTTTGGATAGCTCAATGAAACACATGCAGTTGA AGCCAAATACTGTGGAGACAACATACACGGGTCAACATGTTGCAAGTGCTCCACTCTACC AAATGAATAAGACTGGGGCAACTGGCACTCCAGACCCTGGAACTGAAGGAAGTCATCCTG ATCAAACGAATGATCAAGTGGGAGGAGCTAATGGAAGTATGGACTGCATCCATCCAACAC TTCCCGTGGATCTAAAATTTGGCAGCAGCTCCACAGCGCAGCCCTTTCCCCACAACTATT CAGGCTTTGCACCAACGATGCAATGCCAGTGCAACCAAGATGCCTACAGGTCATCTGTTG ATATGTCGTCCACCTTCTCCAACATGCTCGTTTCCACATTGTTATCAAACCCCACAGTAC ATGCAGCTGCAAGGCTTGCAGCATCATACTGGCCAGCAGCAGACAGCAACATCCCTGTCG ATCCAAATCAAGGAATTTTTGCTCAGAATGCTCAAGGAAGACATATTGTTTCTCCTCCAA GCATGGCTTCTGTGGTAGCAGCTACAGTTGCTGCGGCTTCGGCATGGTGGGCAACACAAG GTCTTCTCCCTCTTTTTGCTCCCCCCATGGCTTTTCCATTTGTCCCAGTTCCTACCGCTT CCTTTCCCACAGCGGATGTCCAGCGAGCTACAGAGAACTGCCCAGTGGACAACGCACCAA AGGAATGCCAAGTAGCTCAGGGGCAAGGTCAACCTGAAGCTATGATAGTTGTAGCATCTT CTGGGTCCGGCGAGAGTGGAAAAGGAGAGGTGTGTCCTCACACTGAGTTAAATATATCTC TGGCTGATAAAGCTGAGACAACACCTGCCACAGGAGCTGAAACAAGTGATGCTTTGGGCA ACAAGAAGAAGCAGGATCGCTCTTCATGTGGTTCCAACACACCATCAAGTAGTGATGTAG AGGCAGAACATGTTCCTGAGAACCAAGATCAAGCTAACGACAAGACACAGCAAGCATGTT GCAGTAATTCTTCAGCTGGTGACATGAACCATCGCAGGTTTAGGAACATTTCAAGCACGA ATGATTCATGGAAGGAAGTTTCCGAGGAGGGTCGTATGGCTTTCGATAAACTGTTCAGTA GAGGAAAGCTTCCCCAAAGCTTTTCTCCTCCACAAGCAGAAGGATTGAAGGTGGTTCCCA GAGGGGAGCAAGATGAAGCTACTACGGTGACGGTCGACCTCAACAAGAGTGCTGCAGTTA TGGACCATGAACTTGACACATTGGTTGGGCCAAGAGCTTCCTTTCCCATTGAATTGTCAC ACCTGAATATGAAATCCCGCCGGACAGGCTTCAAACCTTACAAGAGGTGCTCGGTGGAAG CAAAGGAGAATAGGGTGCCGGCTGCTGACGAGGTTGGTACCAAAAGGATTCGCCTTGACA GCGAACCCTCCACGTGATTTACTTCCCACGACATGATTACCAGCCTGCACAAGTAGTGTA TTTTCAAGAAATTGCGGTATTTACATCTAAGCTACTATAGGACTTGCCAGTCCTTGCAAT GCAGTGTTTCACAGAACTCAATTTGTTATGTGTTGTATGTTAATGCTTGCCGAGCAGCCC TTTTAGACTGTCAATTAAGCATTAAGCACCTATGCATGCTACTTTATTGGTAAAAAAGTA ATTCTGCTTATTTTTCTGTGATGAAGGATAATACTTGTAATTTTGCTTCATTTTACTGGA TCATGTAGATTTAATTCCCGAAGGGAGAGCATGATCGCCTTGTGTTATTTTTATTTTCTT GAGAAAAATATTGTGCTATGTATATGCACCCTAGATTTGAAGTTTCTTGGATGGTCCAGC TTTCTCAAACAGTGTACTTCTTTTAATTTAAAATAAAATATATGGCTTGTATCTTTAATA TCGAAGGTACTCCCTCTATAAAAAGTATAAAAGCATTTATAGATTAGTAATCTAATCGCT ATTATGTTTCTTTACGGATGGAGTAATTGGTATGCTCGTCTCATTTTCCCCTGCCTTCTC CGC
Protein Sequence (717 aa)
>BART1_0-u53703.001 717 150831_barley_pseudomolecules MEINSSGEETVIKVRKPYTITKQRERWTEAEHKRFLEALKLYGRAWQRIEEHVGTKTAVQ IRSHAQKFFTKLEKEAINNGTSPGQAHDIDIPPPRPKRKPNCPYPRKGCLSSETPTREVP KSSVSLSNSNSQMESNGTLQVTSTQKLQRKELSGNGSCSEVINIFREAPSASFSSSNKSS SNHGVSGGIEPTKTEIKDMAAMERKSTSVDVAKDVKDINDQEMERNNRVHISSKYDRSHE DCLDSSMKHMQLKPNTVETTYTGQHVASAPLYQMNKTGATGTPDPGTEGSHPDQTNDQVG GANGSMDCIHPTLPVDLKFGSSSTAQPFPHNYSGFAPTMQCQCNQDAYRSSVDMSSTFSN MLVSTLLSNPTVHAAARLAASYWPAADSNIPVDPNQGIFAQNAQGRHIVSPPSMASVVAA TVAAASAWWATQGLLPLFAPPMAFPFVPVPTASFPTADVQRATENCPVDNAPKECQVAQG QGQPEAMIVVASSGSGESGKGEVCPHTELNISLADKAETTPATGAETSDALGNKKKQDRS SCGSNTPSSSDVEAEHVPENQDQANDKTQQACCSNSSAGDMNHRRFRNISSTNDSWKEVS EEGRMAFDKLFSRGKLPQSFSPPQAEGLKVVPRGEQDEATTVTVDLNKSAAVMDHELDTL VGPRASFPIELSHLNMKSRRTGFKPYKRCSVEAKENRVPAADEVGTKRIRLDSEPST