- Transcript BART1_0-u53703.039
- Transcript IDBART1_0-u53703.039
- Gene IDBART1_0-u53703
Barley RTD
Exon Structure of BART1_0-u53703.039
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 385862497 | 385861680 | - |
| 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 | 385869226 | 385868213 | - |
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 | 0.128901 | 0.163091 | 0.0987957 |
| morex | ETI | 1.02421 | 1.09628 | 0.405431 |
| morex | LEA | 0.851343 | 1.31997 | 0.952479 |
| morex | EPI | 0.068578 | 0.134596 | 0.0226551 |
| morex | ROO | 0.0747149 | 0.233083 | 0.155051 |
| morex | ROO2 | 0.380828 | 0.240876 | 0.22279 |
| morex | NOD | 0.724168 | 1.6037 | 1.74147 |
| morex | RAC | 0.0269169 | 0.105117 | 0.159357 |
| morex | INF1 | 0.526018 | 0.237642 | 0.201646 |
| morex | INF2 | 1.37647 | 0.446847 | 0.336629 |
| morex | CAR5 | 0.17118 | 0.114454 | 0.0630393 |
| morex | CAR15 | 0.179764 | 0.086793 | 0.104436 |
| morex | LEM | 0.644541 | 0.548884 | 0.21043 |
| morex | LOD | 0.104972 | 0.161762 | 0.311214 |
| morex | PAL | 0.0553272 | 0.145983 | 0.10083 |
| morex | SEN | 0.398645 | 0.516147 | 0.178577 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g06110.2 | +2 | 0.0 | 878 | 526/725 (73%) | protein|MYB family transcription factor, putative, expressed |
| TAIR PP10 | AT2G46830 @ ARAPORT AT2G46830.1 @ TAIR |
+2 | 6e-38 | 152 | 71/91 (78%) | Symbols: CCA1 | circadian clock associated 1 | chr2:19246005-19248717 FORWARD LENGTH=608 |
| BRACH PP3 | Bradi3g16515.1.p | +2 | 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 (4059 bp)
>BART1_0-u53703.039 4059 150831_barley_pseudomolecules GGCGGCTAGGGTTTGGGGCTCTCGTCTCCTGAGGGAGACGACAACAGAATATACTGTTTA TTGTCTGCTTAATATCGAAGGGGTACATGTGTTTATAAAGGAGGACAGCCTCCACTAAAC CCTAGATAACTTGGACTCTAACTTGAACTCTAATATAACTTGGACTCTAATATAACTTGG ACTTCTAAGATAGGTAAGATAACTTGGGCTAAGCCCGTAATTAACCCTGCCCATTGGGCC TCCTCCGTTGGTACGTTGTACCGGTCATAACAGCGGCCCAGGGTGTCCACAGCAAGCACG AAGAGTTGCAGGGACACGGGGTCACCAAGCGCTAGTCTGGCTCCTTTTGGCAAAAGTTCA CTCCCTTCCAAGCATCCTTCCAGAGTCGTATTGCACTTGCCTTTTTTTTTGGAAAAGATA ATATATTAATATCGTGAAGATACCAACTACACCCAGCCTCTGCACCAACAAGATGTCATA AAAACATCCAAGATGCACACAGCCTGAGAAGTAAACAAAAAAGAAAGAAAAAATACTATG GTCTTGCCACAGTGATCAACTCCTCTCAGCAGCAGCACACAAACCACTACCAAAGAGAAC ACCCGGAAAGCTCCTCCAGTGCTGCCGCCCCCACTTGTCACTGCTGCTTGAAAGTTATCA AACACCTGGCTGACTCCATCGCCTCTAAGGCCCCCTCCACCTTACTGATCCTCCGATCTC AGCCATCATGACTTTCCTCGCCGCTGTTTGTGCCATGGAAATCGAGATACTGACATGTCC CATGGTGTCAACAACCAACGGAGCTTCGTGCCGCACCCTCATGGAGCCGCGTTGGTTGAT ATAGACGTGCACGACCGGATTCTATCCGATCCAAATATCCTTGGGCAAGATCTCCGACAG TAGTTCTGGAACACGTCGATGGCCAGATCAGGAAGGACCGATCATGCAGATCGTTGCCGT ATTGCACTTGCCTAGTGCAGCGGAGCCAATGCTGCAAGTACAGTTTGTCCCCAGGTGTAG GAAGTGTTAAGGGGATACATAATCGGTTTTGAGCTGCGAGGCCCTGCATTTCTTCTGCCT GCTGTTTGATTCACGGCCCACTCTTTTCCTTCTATCCATTCAAGCAAAGTACTGGAATTT CTGAGCCCAATTTATTCAGGTCATGGGATTTGTTTGTCCTTAGCAGAGTTGAAGATAAAG AGAGGAAGGCTAAACTCTGCTGATCCGGTTCATGCGAGCAATGAGCCAACTGCAGTAGAG GTTTACAGTAGAGAGGTTTAGGGGGAGGTATGAGATACTACTCGCGTCAGGTCCAGCGTT TGGCTGGAGACACAGAAGGAGGAGTGCTGTTGTTTGTAGACGCCCTCAACTCCAAGTAAC AAAGCGACCAGTTGTCAGCACTTCCTTTTGTTTTCGCATTTCCCTGGAATTGGAGATGGA GATAAATTCTTCGGGTGAGGAAACGGTGATAAAGGTGCGAAAGCCGTACACAATAACAAA ACAGCGGGAGCGGTGGACTGAGGCAGAGCACAAACGGTTCCTTGAAGCCCTCAAACTGTA TGGCAGAGCTTGGCAGCGCATAGAAGAGCATGTTGGGACAAAGACGGCCGTGCAAATCAG AAGCCATGCTCAGAAGTTCTTCACAAAGTTGGAAAAGGAAGCTATCAACAATGGTACTTC TCCAGGACAAGCTCATGATATAGACATACCTCCACCACGGCCTAAAAGAAAACCTAACTG TCCATATCCTCGAAAAGGTTGTCTCAGCTCTGAGACACCCACCAGAGAAGTTCCAAAATC AAGTGTTAGCTTGAGCAATAGCAATTCACAAATGGAAAGCAATGGAACTCTTCAGGTCAC CAGCACTCAGAAACTTCAAAGGAAGGAGTTGTCTGGAAACGGCAGTTGCTCAGAAGTTAT TAATATCTTTAGAGAAGCACCATCTGCCTCATTTTCTTCCTCTAACAAGAGCTCTTCAAA TCATGGTGTCTCTGGGGGAATTGAACCGACTAAAACAGAAATCAAAGATATGGCAGCCAT GGAAAGGAAATCTACTTCCGTTGATGTGGCGAAGGATGTAAAAGATATTAATGACCAGGA AATGGAAAGGAACAACAGAGTCCACATCAGTTCTAAATATGACCGTTCTCATGAAGATTG TTTGGATAGCTCAATGAAACACATGCAGTTGAAGCCAAATACTGTGGAGACAACATACAC GGGTCAACATGTTGCAAGTGCTCCACTCTACCAAATGAATAAGACTGGGGCAACTGGCAC TCCAGACCCTGGAACTGAAGGAAGTCATCCTGATCAAACGAATGATCAAGTGGGAGGAGC TAATGGAAGTATGGACTGCATCCATCCAACACTTCCCGTGGATCTAAAATTTGGCAGCAG CTCCACAGCGCAGCCCTTTCCCCACAACTATTCAGGCTTTGCACCAACGATGCAATGCCA GTGCAACCAAGATGCCTACAGGTCATCTGTTGATATGTCGTCCACCTTCTCCAACATGCT CGTTTCCACATTGTTATCAAACCCCACAGTACATGCAGCTGCAAGGCTTGCAGCATCATA CTGGCCAGCAGCAGACAGCAACATCCCTGTCGATCCAAATCAAGGAATTTTTGCTCAGAA TGCTCAAGGAAGACATATTGTTTCTCCTCCAAGCATGGCTTCTGTGGTAGCAGCTACAGT TGCTGCGGCTTCGGCATGGTGGGCAACACAAGGTCTTCTCCCTCTTTTTGCTCCCCCCAT GGCTTTTCCATTTGTCCCAGTTCCTACCGCTTCCTTTCCCACAGCGGATGTCCAGCGAGC TACAGAGAACTGCCCAGTGGACAACGCACCAAAGGAATGCCAAGTAGCTCAGGGGCAAGG TCAACCTGAAGCTATGATAGTTGTAGCATCTTCTGGGTCCGGCGAGAGTGGAAAAGGAGA GGTGTGTCCTCACACTGAGTTAAATATATCTCTGGCTGATAAAGCTGAGACAACACCTGC CACAGGAGCTGAAACAAGTGATGCTTTGGGCAACAAGAAGAAGCAGGATCGCTCTTCATG TGGTTCCAACACACCATCAAGTAGTGATGTAGAGGCAGAACATGTTCCTGAGAACCAAGA TCAAGCTAACGACAAGACACAGCAAGCATGTTGCAGTAATTCTTCAGCTGGTGACATGAA CCATCGCAGGTTTAGGAACATTTCAAGCACGAATGATTCATGGAAGGAAGTTTCCGAGGA GGGTCGTATGGCTTTCGATAAACTGTTCAGTAGAGGAAAGCTTCCCCAAAGCTTTTCTCC TCCACAAGCAGAAGGATTGAAGGTGGTTCCCAGAGGGGAGCAAGATGAAGCTACTACGGT GACGGTCGACCTCAACAAGAGTGCTGCAGTTATGGACCATGAACTTGACACATTGGTTGG GCCAAGAGCTTCCTTTCCCATTGAATTGTCACACCTGAATATGAAATCCCGCCGGACAGG CTTCAAACCTTACAAGAGGTGCTCGGTGGAAGCAAAGGAGAATAGGGTGCCGGCTGCTGA CGAGGTTGGTACCAAAAGGATTCGCCTTGACAGCGAACCCTCCACGTGATTTACTTCCCA CGACATGATTACCAGCCTGCACAAGTAGTGTATTTTCAAGAAATTGCGGTATTTACATCT AAGCTACTATAGGACTTGCCAGTCCTTGCAATGCAGTGTTTCACAGAACTCAATTTGTTA TGTGTTGTATGTTAATGCTTGCCGAGCAGCCCTTTTAGACTGTCAATTAAGCATTAAGCA CCTATGCATGCTACTTTATTGGTAAAAAAGTAATTCTGCTTATTTTTCTGTGATGAAGGA TAATACTTGTAATTTTGCTTCATTTTACTGGATCATGTAGATTTAATTCCCGAAGGGAGA GCATGATCGCCTTGTGTTATTTTTATTTTCTTGAGAAAAATATTGTGCTATGTATATGCA CCCTAGATTTGAAGTTTCTTGGATGGTCCAGCTTTCTCAAACAGTGTACTTCTTTTAATT TAAAATAAAATATATGGCTTGTATCTTTAATATCGAAGG
Protein Sequence (717 aa)
>BART1_0-u53703.039 717 150831_barley_pseudomolecules MEINSSGEETVIKVRKPYTITKQRERWTEAEHKRFLEALKLYGRAWQRIEEHVGTKTAVQ IRSHAQKFFTKLEKEAINNGTSPGQAHDIDIPPPRPKRKPNCPYPRKGCLSSETPTREVP KSSVSLSNSNSQMESNGTLQVTSTQKLQRKELSGNGSCSEVINIFREAPSASFSSSNKSS SNHGVSGGIEPTKTEIKDMAAMERKSTSVDVAKDVKDINDQEMERNNRVHISSKYDRSHE DCLDSSMKHMQLKPNTVETTYTGQHVASAPLYQMNKTGATGTPDPGTEGSHPDQTNDQVG GANGSMDCIHPTLPVDLKFGSSSTAQPFPHNYSGFAPTMQCQCNQDAYRSSVDMSSTFSN MLVSTLLSNPTVHAAARLAASYWPAADSNIPVDPNQGIFAQNAQGRHIVSPPSMASVVAA TVAAASAWWATQGLLPLFAPPMAFPFVPVPTASFPTADVQRATENCPVDNAPKECQVAQG QGQPEAMIVVASSGSGESGKGEVCPHTELNISLADKAETTPATGAETSDALGNKKKQDRS SCGSNTPSSSDVEAEHVPENQDQANDKTQQACCSNSSAGDMNHRRFRNISSTNDSWKEVS EEGRMAFDKLFSRGKLPQSFSPPQAEGLKVVPRGEQDEATTVTVDLNKSAAVMDHELDTL VGPRASFPIELSHLNMKSRRTGFKPYKRCSVEAKENRVPAADEVGTKRIRLDSEPST