- Transcript BART1_0-u53703.056
- Transcript IDBART1_0-u53703.056
- Gene IDBART1_0-u53703
Barley RTD
Exon Structure of BART1_0-u53703.056
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 385863972 | 385861690 | - |
| chr7H | 2 | 385864284 | 385864078 | - |
| chr7H | 3 | 385865991 | 385865930 | - |
| chr7H | 4 | 385866338 | 385866227 | - |
| chr7H | 5 | 385866611 | 385866409 | - |
| chr7H | 6 | 385867084 | 385867000 | - |
| chr7H | 7 | 385867226 | 385867200 | - |
| chr7H | 8 | 385867543 | 385867389 | - |
| chr7H | 9 | 385871248 | 385871162 | - |
| chr7H | 10 | 385872199 | 385871331 | - |
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 | 0.000000000682073 | 0.0000211065 | 0 |
| morex | LEA | 0.0524372 | 1.61876 | 1.19476 |
| morex | EPI | 0 | 0.146119 | 0 |
| morex | ROO | 0 | 0.284529 | 0.345211 |
| morex | ROO2 | 0.00000000132609 | 0 | 0 |
| morex | NOD | 0.51494 | 0.959937 | 0.445592 |
| morex | RAC | 0 | 0.00946951 | 0 |
| morex | INF1 | 0.27419 | 0.0793023 | 0.0672345 |
| morex | INF2 | 0 | 0 | 0.297162 |
| morex | CAR5 | 0.54344 | 0.23843 | 0 |
| morex | CAR15 | 0.101865 | 0 | 0 |
| morex | LEM | 0.617368 | 0.949055 | 0.0470451 |
| morex | LOD | 0.00717496 | 0 | 0.175923 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0.47908 | 0.105345 | 0.0722614 |
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 | 696 | 437/609 (72%) | 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 | 748 | 463/602 (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 (4090 bp)
>BART1_0-u53703.056 4090 150831_barley_pseudomolecules GGCTGGGCGGGCGACGTGGCCACCGGGGTCAGCTTGCTTGCTGCTCGCCCGAGGTAACCT AGAACTAAGAACCATACAAGTTTCCAGAAATTCGTGCTTCCACTGGACGACGCGATTGAT ATATACGCTCCCCTCGCAAGTCCGTTCCTAGGTGTGCTAGTTTGTCGACTGAAAACTGTG CAGCAAATGAGCCCACGCTTTTTTTTTTCTGTGCCTGGTCGGTCTCTGTGGTTGCAGTGT TTGATTCCCGTTGCTCTGCTCCAATGATCATGGTGCACAAGCTCAGAATTCTGAGCGCTT CAACTGCATCCTTTTTCTTGCTCTAGTTAGTCCTGTCCATTTTACTGTGGCTAGGAATAA AATTAATAGTGATTCTATGGTCCAACTTCTTAGAAAACTGTATGGTCGACTAGTAAACTT AGGTACGTGTTTTTTTATCTTGCTTTTTTAGCTTTCACGGGTTTGAGGTGTGCTTTTATC AGATCTCTGATCTAGTATGGTGTTGTTTGTGCTCTGAAGTTGTTTAAAAAGAACGTGTGT AAGTTAGGCTTCTGAGTTTGCTATGCAGGGAGAGAACAGCTTATTTTTTTTATAAGCAGG TGAGTTAAGTTAATTTTGGATTTGCTATGCTGAAAAGAGAGCAGCTTGATCTAGTTTAAC TAAGCAGGTGAAGTAATTTGACTAAAATAGATGCTATAGTGAATCGTGCTAAGAAGAAAA TATATTTTTTATCTGCTATCAAACATTCATGTTTTTTTTTGGTTGTTGTTATGTCAATAT ATTTGCTATGATAAAATATCGGGCTGGCTTAAATTCTACTGTTTGTTTCGGAAAGTTCAG CAATCCTAAAGCAACATATGCATATTCAGGCATACTATGTTGTCCTTAAATAACGTGGTT CAGGTTGTGGGAGATAAACTCATGGATGCTCCTTCAAAGGTATACTGTTAGTGGAGTAAC TTTCAGGTGTAGGAAGTGTTAAGGGGATACATAATCGGTTTTGAGCTGCGAGGCCCTGCA TTTCTTCTGCCTGCTGTTTGATTCACGGCCCACTCTTTTCCTTCTATCCATTCAAGCAAA GTACTGGAATTTCTGAGCCCAATTTATTCAGGTCATGGGATTTGTTTGTCCTTAGCAGAG TTGAAGATAAAGAGAGGAAGGCTAAACTCTGCTGATCCGGTTCATGCGAGCAATGAGCCA ACTGCAGTAGAGGTTTACAGTAGAGAGGTTTAGGGGGAGGTATGAGATACTACTCGCGTC AGGTCCAGCGTTTGGCTGGAGACACAGAAGGAGGAGTGCTGTTGTTTGTAGACGCCCTCA ACTCCAAGTAACAAAGCGACCAGTTGTCAGCACTTCCTTTTGTTTTCGCATTTCCCTGGA ATTGGAGATGGAGATAAATTCTTCGGGTGAGGAAACGGTGATAAAGGTGCGAAAGCCGTA CACAATAACAAAACAGCGGGAGCGGTGGACTGAGGCAGAGCACAAACGGTTCCTTGAAGC CCTCAAACTGTATGGCAGAGCTTGGCAGCGCATAGAAGAGCATGTTGGGACAAAGACGGC CGTGCAAATCAGAAGCCATGCTCAGAAGTTCTTCACAAAGTTGGAAAAGGAAGCTATCAA CAATGGTACTTCTCCAGGACAAGCTCATGATATAGACATACCTCCACCACGGCCTAAAAG AAAACCTAACTGTCCATATCCTCGAAAAGGTTGTCTCAGCTCTGAGACACCCACCAGAGA AGTTCCAAAATCAAGTGTTAGCTTGAGCAATAGCAATTCACAAATGGAAAGCAATGGAAC TCTTCAGGTCACCAGCACTCAGAAACTTCAAAGGAAGGAGTTGTCTGGAAACGGCAGTTG CTCAGAAGTTATTAATATCTTTAGAGAAGCACCATCTGCCTCATTTTCTTCCTCTAACAA GAGCTCTTCAAATCATGGTGTCTCTGGGGGAATTGAACCGACTAAAACAGAAATCAAAGA TATGGCAGCCATGGAAAGGAAATCTACTTCCGTTGATGTGGCGAAGGATGTAAAAGATAT TAATGACCAGGAAATGGAAAGGAACAACAGAGTCCACATCAGTTCTAAATATGACCGTTC TCATGAAGATTGTTTGGATAGCTCAATGAAACACATGCAGTTGAAGCCAAATACTGTGGA GACAACATACACGGGTCAACATGTTGCAAGTGCTCCACTCTACCAAATGAATAAGACTGG GGCAACTGGCACTCCAGACCCTGGAACTGAAGGAAGTCATCCTGATCAAACGAATGATCA AGTGGGAGGAGCTAATGGAAGTATGGACTGCATCCATCCAACACTTCCCGTGGATCTAAA ATTTGGCAGCAGCTCCACAGCGCAGCCCTTTCCCCACAACTATTCAGGCTTTGCACCAAC GATGCAATGCCAGTGCAACCAAGATGCCTACAGGTCATCTGTTGATATGTCGTCCACCTT CTCCAACATGCTCGTTTCCACATTGTTATCAAACCCCACAGTACATGCAGCTGCAAGGCT TGCAGCATCATACTGGCCAGCAGCAGACAGCAACATCCCTGTCGATCCAAATCAAGGAAT TTTTGCTCAGAATGCTCAAGGAAGACATATTGTTTCTCCTCCAAGCATGGCTTCTGTGGT AGCAGCTACAGTTGCTGCGGCTTCGGCATGGTGGGCAACACAAGGTCTTCTCCCTCTTTT TGCTCCCCCCATGGCTTTTCCATTTGTCCCAGTTCCTACCGCTTCCTTTCCCACAGCGGA TGTCCAGCGAGCTACAGAGAACTGCCCAGTGGACAACGCACCAAAGGAATGCCAAGTAGC TCAGGGGCAAGGTCAACCTGAAGCTATGATAGTTGTAGCATCTTCTGGGTCCGGCGAGAG TGGAAAAGGAGAGGTGTGTCCTCACACTGAGTTAAATATATCTCTGGCTGATAAAGCTGA GACAACACCTGCCACAGGAGCTGAAACAAGTGATGCTTTGGGCAACAAGAAGAAGCAGGA TCGCTCTTCATGTGGTTCCAACACACCATCAAGTAGTGATGTAGAGGCAGAACATGTTCC TGAGAACCAAGATCAAGCTAACGACAAGACACAGCAAGCATGTTGCAGTAATTCTTCAGC TGGTGACATGAACCATCGCAGGTTTAGGAACATTTCAAGCACGAATGATTCATGGAAGGA AGTTTCCGAGGAGGTTGTAGTCTACCAGCATTGCCGAATTTCATTTCTATGTTACTCTTG AGCATCTATCACTGCTTTTCTAATTCACATTTCTGCTGTCAGGGTCGTATGGCTTTCGAT AAACTGTTCAGTAGAGGAAAGCTTCCCCAAAGCTTTTCTCCTCCACAAGCAGAAGGATTG AAGGTGGTTCCCAGAGGGGAGCAAGATGAAGCTACTACGGTGACGGTCGACCTCAACAAG AGTGCTGCAGTTATGGACCATGAACTTGACACATTGGTTGGGCCAAGAGCTTCCTTTCCC ATTGAATTGTCACACCTGAATATGAAATCCCGCCGGACAGGCTTCAAACCTTACAAGAGG TGCTCGGTGGAAGCAAAGGAGAATAGGGTGCCGGCTGCTGACGAGGTTGGTACCAAAAGG ATTCGCCTTGACAGCGAACCCTCCACGTGATTTACTTCCCACGACATGATTACCAGCCTG CACAAGTAGTGTATTTTCAAGAAATTGCGGTATTTACATCTAAGCTACTATAGGACTTGC CAGTCCTTGCAATGCAGTGTTTCACAGAACTCAATTTGTTATGTGTTGTATGTTAATGCT TGCCGAGCAGCCCTTTTAGACTGTCAATTAAGCATTAAGCACCTATGCATGCTACTTTAT TGGTAAAAAAGTAATTCTGCTTATTTTTCTGTGATGAAGGATAATACTTGTAATTTTGCT TCATTTTACTGGATCATGTAGATTTAATTCCCGAAGGGAGAGCATGATCGCCTTGTGTTA TTTTTATTTTCTTGAGAAAAATATTGTGCTATGTATATGCACCCTAGATTTGAAGTTTCT TGGATGGTCCAGCTTTCTCAAACAGTGTACTTCTTTTAATTTAAAATAAAATATATGGCT TGTATCTTTA
Protein Sequence (617 aa)
>BART1_0-u53703.056 617 150831_barley_pseudomolecules MEINSSGEETVIKVRKPYTITKQRERWTEAEHKRFLEALKLYGRAWQRIEEHVGTKTAVQ IRSHAQKFFTKLEKEAINNGTSPGQAHDIDIPPPRPKRKPNCPYPRKGCLSSETPTREVP KSSVSLSNSNSQMESNGTLQVTSTQKLQRKELSGNGSCSEVINIFREAPSASFSSSNKSS SNHGVSGGIEPTKTEIKDMAAMERKSTSVDVAKDVKDINDQEMERNNRVHISSKYDRSHE DCLDSSMKHMQLKPNTVETTYTGQHVASAPLYQMNKTGATGTPDPGTEGSHPDQTNDQVG GANGSMDCIHPTLPVDLKFGSSSTAQPFPHNYSGFAPTMQCQCNQDAYRSSVDMSSTFSN MLVSTLLSNPTVHAAARLAASYWPAADSNIPVDPNQGIFAQNAQGRHIVSPPSMASVVAA TVAAASAWWATQGLLPLFAPPMAFPFVPVPTASFPTADVQRATENCPVDNAPKECQVAQG QGQPEAMIVVASSGSGESGKGEVCPHTELNISLADKAETTPATGAETSDALGNKKKQDRS SCGSNTPSSSDVEAEHVPENQDQANDKTQQACCSNSSAGDMNHRRFRNISSTNDSWKEVS EEVVVYQHCRISFLCYS