- Transcript BART1_0-u53703.040
- Transcript IDBART1_0-u53703.040
- Gene IDBART1_0-u53703
Barley RTD
Exon Structure of BART1_0-u53703.040
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 385863972 | 385861681 | - |
| 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 | 385872185 | 385871179 | - |
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 | 0.119432 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0.249424 | 0.690807 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0.186551 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.136479 | 0.249083 | 0 |
| morex | LOD | 0 | 0 | 0.117796 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
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 | 7e-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 (4150 bp)
>BART1_0-u53703.040 4150 150831_barley_pseudomolecules CGTGGCCACCGGGGTCAGCTTGCTTGCTGCTCGCCCGAGGTAACCTAGAACTAAGAACCA TACAAGTTTCCAGAAATTCGTGCTTCCACTGGACGACGCGATTGATATATACGCTCCCCT CGCAAGTCCGTTCCTAGGTGTGCTAGTTTGTCGACTGAAAACTGTGCAGCAAATGAGCCC ACGCTTTTTTTTTTCTGTGCCTGGTCGGTCTCTGTGGTTGCAGTGTTTGATTCCCGTTGC TCTGCTCCAATGATCATGGTGCACAAGCTCAGAATTCTGAGCGCTTCAACTGCATCCTTT TTCTTGCTCTAGTTAGTCCTGTCCATTTTACTGTGGCTAGGAATAAAATTAATAGTGATT CTATGGTCCAACTTCTTAGAAAACTGTATGGTCGACTAGTAAACTTAGGTACGTGTTTTT TTATCTTGCTTTTTTAGCTTTCACGGGTTTGAGGTGTGCTTTTATCAGATCTCTGATCTA GTATGGTGTTGTTTGTGCTCTGAAGTTGTTTAAAAAGAACGTGTGTAAGTTAGGCTTCTG AGTTTGCTATGCAGGGAGAGAACAGCTTATTTTTTTTATAAGCAGGTGAGTTAAGTTAAT TTTGGATTTGCTATGCTGAAAAGAGAGCAGCTTGATCTAGTTTAACTAAGCAGGTGAAGT AATTTGACTAAAATAGATGCTATAGTGAATCGTGCTAAGAAGAAAATATATTTTTTATCT GCTATCAAACATTCATGTTTTTTTTTGGTTGTTGTTATGTCAATATATTTGCTATGATAA AATATCGGGCTGGCTTAAATTCTACTGTTTGTTTCGGAAAGTTCAGCAATCCTAAAGCAA CATATGCATATTCAGGTATGTTGCCAAAAAAATATATGTTTCTATTAGTATTAGTTACTC GTTTTGCTTCCTAGTAAGCTCATAGATATGTTTGCAGGCATACTATGTTGTCCTTAAATA ACGTGGTTCAGGTTGTGGGAGATAAACTCATGGATGCTCCTTCAAAGTAACTTTCAGGTG TAGGAAGTGTTAAGGGGATACATAATCGGTTTTGAGCTGCGAGGCCCTGCATTTCTTCTG CCTGCTGTTTGATTCACGGCCCACTCTTTTCCTTCTATCCATTCAAGCAAAGTACTGGAA TTTCTGAGCCCAATTTATTCAGGTCATGGGATTTGTTTGTCCTTAGCAGAGTTGAAGATA AAGAGAGGAAGGCTAAACTCTGCTGATCCGGTTCATGCGAGCAATGAGCCAACTGCAGTA GAGGTTTACAGTAGAGAGGTTTAGGGGGAGGTATGAGATACTACTCGCGTCAGGTCCAGC GTTTGGCTGGAGACACAGAAGGAGGAGTGCTGTTGTTTGTAGACGCCCTCAACTCCAAGT AACAAAGCGACCAGTTGTCAGCACTTCCTTTTGTTTTCGCATTTCCCTGGAATTGGAGAT GGAGATAAATTCTTCGGGTGAGGAAACGGTGATAAAGGTGCGAAAGCCGTACACAATAAC AAAACAGCGGGAGCGGTGGACTGAGGCAGAGCACAAACGGTTCCTTGAAGCCCTCAAACT GTATGGCAGAGCTTGGCAGCGCATAGAAGAGCATGTTGGGACAAAGACGGCCGTGCAAAT CAGAAGCCATGCTCAGAAGTTCTTCACAAAGTTGGAAAAGGAAGCTATCAACAATGGTAC TTCTCCAGGACAAGCTCATGATATAGACATACCTCCACCACGGCCTAAAAGAAAACCTAA CTGTCCATATCCTCGAAAAGGTTGTCTCAGCTCTGAGACACCCACCAGAGAAGTTCCAAA ATCAAGTGTTAGCTTGAGCAATAGCAATTCACAAATGGAAAGCAATGGAACTCTTCAGGT CACCAGCACTCAGAAACTTCAAAGGAAGGAGTTGTCTGGAAACGGCAGTTGCTCAGAAGT TATTAATATCTTTAGAGAAGCACCATCTGCCTCATTTTCTTCCTCTAACAAGAGCTCTTC AAATCATGGTGTCTCTGGGGGAATTGAACCGACTAAAACAGAAATCAAAGATATGGCAGC CATGGAAAGGAAATCTACTTCCGTTGATGTGGCGAAGGATGTAAAAGATATTAATGACCA GGAAATGGAAAGGAACAACAGAGTCCACATCAGTTCTAAATATGACCGTTCTCATGAAGA TTGTTTGGATAGCTCAATGAAACACATGCAGTTGAAGCCAAATACTGTGGAGACAACATA CACGGGTCAACATGTTGCAAGTGCTCCACTCTACCAAATGAATAAGACTGGGGCAACTGG CACTCCAGACCCTGGAACTGAAGGAAGTCATCCTGATCAAACGAATGATCAAGTGGGAGG AGCTAATGGAAGTATGGACTGCATCCATCCAACACTTCCCGTGGATCTAAAATTTGGCAG CAGCTCCACAGCGCAGCCCTTTCCCCACAACTATTCAGGCTTTGCACCAACGATGCAATG CCAGTGCAACCAAGATGCCTACAGGTCATCTGTTGATATGTCGTCCACCTTCTCCAACAT GCTCGTTTCCACATTGTTATCAAACCCCACAGTACATGCAGCTGCAAGGCTTGCAGCATC ATACTGGCCAGCAGCAGACAGCAACATCCCTGTCGATCCAAATCAAGGAATTTTTGCTCA GAATGCTCAAGGAAGACATATTGTTTCTCCTCCAAGCATGGCTTCTGTGGTAGCAGCTAC AGTTGCTGCGGCTTCGGCATGGTGGGCAACACAAGGTCTTCTCCCTCTTTTTGCTCCCCC CATGGCTTTTCCATTTGTCCCAGTTCCTACCGCTTCCTTTCCCACAGCGGATGTCCAGCG AGCTACAGAGAACTGCCCAGTGGACAACGCACCAAAGGAATGCCAAGTAGCTCAGGGGCA AGGTCAACCTGAAGCTATGATAGTTGTAGCATCTTCTGGGTCCGGCGAGAGTGGAAAAGG AGAGGTGTGTCCTCACACTGAGTTAAATATATCTCTGGCTGATAAAGCTGAGACAACACC TGCCACAGGAGCTGAAACAAGTGATGCTTTGGGCAACAAGAAGAAGCAGGATCGCTCTTC ATGTGGTTCCAACACACCATCAAGTAGTGATGTAGAGGCAGAACATGTTCCTGAGAACCA AGATCAAGCTAACGACAAGACACAGCAAGCATGTTGCAGTAATTCTTCAGCTGGTGACAT GAACCATCGCAGGTTTAGGAACATTTCAAGCACGAATGATTCATGGAAGGAAGTTTCCGA GGAGGTTGTAGTCTACCAGCATTGCCGAATTTCATTTCTATGTTACTCTTGAGCATCTAT CACTGCTTTTCTAATTCACATTTCTGCTGTCAGGGTCGTATGGCTTTCGATAAACTGTTC AGTAGAGGAAAGCTTCCCCAAAGCTTTTCTCCTCCACAAGCAGAAGGATTGAAGGTGGTT CCCAGAGGGGAGCAAGATGAAGCTACTACGGTGACGGTCGACCTCAACAAGAGTGCTGCA GTTATGGACCATGAACTTGACACATTGGTTGGGCCAAGAGCTTCCTTTCCCATTGAATTG TCACACCTGAATATGAAATCCCGCCGGACAGGCTTCAAACCTTACAAGAGGTGCTCGGTG GAAGCAAAGGAGAATAGGGTGCCGGCTGCTGACGAGGTTGGTACCAAAAGGATTCGCCTT GACAGCGAACCCTCCACGTGATTTACTTCCCACGACATGATTACCAGCCTGCACAAGTAG TGTATTTTCAAGAAATTGCGGTATTTACATCTAAGCTACTATAGGACTTGCCAGTCCTTG CAATGCAGTGTTTCACAGAACTCAATTTGTTATGTGTTGTATGTTAATGCTTGCCGAGCA GCCCTTTTAGACTGTCAATTAAGCATTAAGCACCTATGCATGCTACTTTATTGGTAAAAA AGTAATTCTGCTTATTTTTCTGTGATGAAGGATAATACTTGTAATTTTGCTTCATTTTAC TGGATCATGTAGATTTAATTCCCGAAGGGAGAGCATGATCGCCTTGTGTTATTTTTATTT TCTTGAGAAAAATATTGTGCTATGTATATGCACCCTAGATTTGAAGTTTCTTGGATGGTC CAGCTTTCTCAAACAGTGTACTTCTTTTAATTTAAAATAAAATATATGGCTTGTATCTTT AATATCGAAG
Protein Sequence (617 aa)
>BART1_0-u53703.040 617 150831_barley_pseudomolecules MEINSSGEETVIKVRKPYTITKQRERWTEAEHKRFLEALKLYGRAWQRIEEHVGTKTAVQ IRSHAQKFFTKLEKEAINNGTSPGQAHDIDIPPPRPKRKPNCPYPRKGCLSSETPTREVP KSSVSLSNSNSQMESNGTLQVTSTQKLQRKELSGNGSCSEVINIFREAPSASFSSSNKSS SNHGVSGGIEPTKTEIKDMAAMERKSTSVDVAKDVKDINDQEMERNNRVHISSKYDRSHE DCLDSSMKHMQLKPNTVETTYTGQHVASAPLYQMNKTGATGTPDPGTEGSHPDQTNDQVG GANGSMDCIHPTLPVDLKFGSSSTAQPFPHNYSGFAPTMQCQCNQDAYRSSVDMSSTFSN MLVSTLLSNPTVHAAARLAASYWPAADSNIPVDPNQGIFAQNAQGRHIVSPPSMASVVAA TVAAASAWWATQGLLPLFAPPMAFPFVPVPTASFPTADVQRATENCPVDNAPKECQVAQG QGQPEAMIVVASSGSGESGKGEVCPHTELNISLADKAETTPATGAETSDALGNKKKQDRS SCGSNTPSSSDVEAEHVPENQDQANDKTQQACCSNSSAGDMNHRRFRNISSTNDSWKEVS EEVVVYQHCRISFLCYS