- Transcript BART1_0-u53703.006
- Transcript IDBART1_0-u53703.006
- Gene IDBART1_0-u53703
Barley RTD
Exon Structure of BART1_0-u53703.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 385862822 | 385861652 | - |
| chr7H | 2 | 385863972 | 385862887 | - |
| chr7H | 3 | 385864284 | 385864078 | - |
| chr7H | 4 | 385865991 | 385864898 | - |
| chr7H | 5 | 385866338 | 385866227 | - |
| chr7H | 6 | 385866611 | 385866409 | - |
| chr7H | 7 | 385867226 | 385867000 | - |
| chr7H | 8 | 385867543 | 385867389 | - |
| chr7H | 9 | 385872179 | 385872049 | - |
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 | 0 |
| morex | ROO | 0 | 0.102349 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.258401 | 0 | 0.213579 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0.0723194 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 1.13628 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.0507496 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0.065585 | 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 | +3 | 0.0 | 397 | 284/427 (67%) | protein|MYB family transcription factor, putative, expressed |
| TAIR PP10 | AT2G46830 @ ARAPORT AT2G46830.1 @ TAIR |
+3 | 2e-32 | 135 | 61/72 (85%) | Symbols: CCA1 | circadian clock associated 1 | chr2:19246005-19248717 FORWARD LENGTH=608 |
| BRACH PP3 | Bradi3g16515.1.p | +3 | 0.0 | 440 | 305/421 (72%) | 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 (4386 bp)
>BART1_0-u53703.006 4386 150831_barley_pseudomolecules CACCGGGGTCAGCTTGCTTGCTGCTCGCCCGAGGTAACCTAGAACTAAGAACCATACAAG TTTCCAGAAATTCGTGCTTCCACTGGACGACGCGATTGATATATACGCTCCCCTCGCAAG TCCGTTCCTAGTAACTTTCAGGTGTAGGAAGTGTTAAGGGGATACATAATCGGTTTTGAG CTGCGAGGCCCTGCATTTCTTCTGCCTGCTGTTTGATTCACGGCCCACTCTTTTCCTTCT ATCCATTCAAGCAAAGTACTGGAATTTCTGAGCCCAATTTATTCAGGTCATGGGATTTGT TTGTCCTTAGCAGGTGAGCTGGACTGGGTTGCAGCTTCCCTATGCTTCTGACTTTTTTTA GTCTAATCTAATTTTGTCTGTGGAATGGTTGCATGATCTGAGTACTTGAAAGTTTAATCT GATTCTAGAGTTGAAGATAAAGAGAGGAAGGCTAAACTCTGCTGATCCGGTTCATGCGAG CAATGAGCCAACTGCAGTAGAGGTTTACAGTAGAGAGGTTTAGGGGGAGGTATGAGATAC TACTCGCGTCAGGTCCAGCGTTTGGCTGGAGACACAGAAGGAGGAGTGCTGTTGTTTGTA GACGCCCTCAACTCCAAGTAACAAAGCGACCAGTTGTCAGCACTTCCTTTTGTTTTCGCA TTTCCCTGGAATTGGAGATGGAGATAAATTCTTCGGGTGAGGAAACGGTGATAAAGGTGC GAAAGCCGTACACAATAACAAAACAGCGGGAGCGGTGGACTGAGGCAGAGCACAAACGGT TCCTTGAAGCCCTCAAACTGTATGGCAGAGCTTGGCAGCGCATAGAAGAGCATGTTGGGA CAAAGACGGCCGTGCAAATCAGAAGCCATGCTCAGAAGTTCTTCACAAAGGTTATTTTTT CTATCTTATTGGCTAGTACCCTTGTTTGGTTTACTGCTATACCCTTCGTTTTCGGGCTGT TTCATCTTTATTGTTAGTGATAAAATGAAGACTTGCGCATGCTTCATAACTTTTATGTCT TTATTTTACTGAAGTATTTTCATTTTTTCTTTCTTTGTACAGTTTGTTCTGCAGTGCTGA GCATGATGAAAGATTCGTTTCCTTTGAATATCATGAGAACCATGCTTTATCTAATTGTTG CCCTGCTGATTGATTAAAAGATCAAATTAAAGCATGTTAAAATGGATGAAACATGCTAGA AAGTCTTTGCTGATTGTAAGCAATGAGTAATGTTGCAGAGAAGATGATGTTGAACAACTC TGATTCTCTCATTGATTCATTTTACATATCCATGCTGTTATTGAACATACATATGACTAA GAAAACATTATGGTACTAGTTAAATTTACATAGAGAGTCAATATAATACATAATGTGAAA TAGGATATCTGAATGCACTCAAGTGAACTACAGGAAATTCCTTAGGAATTGTATGGTAAA TATGCTAACATTTGTTGCATTTCATTATAGCCCCCATCAACGTAGGTAAACACTTTATCT AACATGTTTCACTATCAACATTGTGTAAATGAGTCCATTTCATTTTCTAAATCATGATAT TTCTTCCGCAGAAGTACACAATGGCATGAACAAAATTTATCTTCTTTCTCCCCTTTTTGT CCTTGCTCTCTTCTCTGCTTTCTGTTCTTTGCTGCTTGTCCTATTTTTTTAGGGGCTGCA TACAGCCACATGGTGGAGGCTACATTGCCAATTTGCCATCATGTTGTAACATGCAACAGA CTGTTGCCTTGTTAGGATTGCAGCCTCATCCTCTCAGAGGTTTCTTTGCCAGACCCATGG AGGAGGGAGGAGGCTAAGGCTAGTCTTTTCTTCCCTTGTTTTGACCACGATGGTTTCTGG GTCCTCAAATTTCATACTTTGCTCACCAGCCATTACCAATCTGACCTTGCTCAATATAGC AGTTGGAAAAGGAAGCTATCAACAATGGTACTTCTCCAGGACAAGCTCATGATATAGACA TACCTCCACCACGGCCTAAAAGAAAACCTAACTGTCCATATCCTCGAAAAGGTTGTCTCA GCTCTGAGACACCCACCAGAGAAGTTCCAAAATCAAGTGTTAGCTTGAGCAATAGCAATT CACAAATGGAAAGCAATGGAACTCTTCAGGTCACCAGCACTCAGAAACTTCAAAGGAAGG AGTTGTCTGGAAACGGCAGTTGCTCAGAAGTTATTAATATCTTTAGAGAAGCACCATCTG CCTCATTTTCTTCCTCTAACAAGAGCTCTTCAAATCATGGTGTCTCTGGGGGAATTGAAC CGACTAAAACAGAAATCAAAGATATGGCAGCCATGGAAAGGAAATCTACTTCCGTTGATG TGGCGAAGGATGTAAAAGATATTAATGACCAGGAAATGGAAAGGAACAACAGAGTCCACA TCAGTTCTAAATATGACCGTTCTCATGAAGATTGTTTGGATAGCTCAATGAAACACATGC AGTTGAAGCCAAATACTGTGGAGACAACATACACGGGTCAACATGTTGCAAGTGCTCCAC TCTACCAAATGAATAAGACTGGGGCAACTGGCACTCCAGACCCTGGAACTGAAGGAAGTC ATCCTGATCAAACGAATGATCAAGTGGGAGGAGCTAATGGAAGTATGGACTGCATCCATC CAACACTTCCCGTGGATCTAAAATTTGGCAGCAGCTCCACAGCGCAGCCCTTTCCCCACA ACTATTCAGGCTTTGCACCAACGATGCAATGCCAGTGCAACCAAGATGCCTACAGGTCAT CTGTTGATATGTCGTCCACCTTCTCCAACATGCTCGTTTCCACATTGTTATCAAACCCCA CAGTACATGCAGCTGCAAGGCTTGCAGCATCATACTGGCCAGCAGCAGACAGCAACATCC CTGTCGATCCAAATCAAGGAATTTTTGCTCAGAATGCTCAAGGAAGACATATTGTTTCTC CTCCAAGCATGGCTTCTGTGGTAGCAGCTACAGTTGCTGCGGCTTCGGCATGGTGGGCAA CACAAGGTCTTCTCCCTCTTTTTGCTCCCCCCATGGCTTTTCCATTTGTCCCAGTTCCTA CCGCTTCCTTTCCCACAGCGGATGTCCAGCGAGCTACAGAGAACTGCCCAGTGGACAACG CACCAAAGGAATGCCAAGTAGCTCAGGGGCAAGGTCAACCTGAAGCTATGATAGTTGTAG CATCTTCTGGGTCCGGCGAGAGTGGAAAAGGAGAGGAGCTGAAACAAGTGATGCTTTGGG CAACAAGAAGAAGCAGGATCGCTCTTCATGTGGTTCCAACACACCATCAAGTAGTGATGT AGAGGCAGAACATGTTCCTGAGAACCAAGATCAAGCTAACGACAAGACACAGCAAGCATG TTGCAGTAATTCTTCAGCTGGTGACATGAACCATCGCAGGTTTAGGAACATTTCAAGCAC GAATGATTCATGGAAGGAAGTTTCCGAGGAGGTTGTAGTCTACCAGCATTGCCGAATTTC ATTTCTATGTTACTCTTGAGCATCTATCACTGCTTTTCTAATTCACATTTCTGCTGTCAG GGTCGTATGGCTTTCGATAAACTGTTCAGTAGAGGAAAGCTTCCCCAAAGCTTTTCTCCT CCACAAGCAGAAGGATTGAAGGTGGTTCCCAGAGGGGAGCAAGATGAAGCTACTACGGTG ACGGTCGACCTCAACAAGAGTGCTGCAGTTATGGACCATGAACTTGACACATTGGTTGGG CCAAGAGCTTCCTTTCCCATTGAATTGTCACACCTGAATATGAAATCCCGCCGGACAGGC TTCAAACCTTACAAGAGGTGCTCGGTGGAAGCAAAGGAGAATAGGGTGCCGGCTGCTGAC GAGGTTGGTACCAAAAGGATTCGCCTTGACAGCGAACCCTCCACGTGATTTACTTCCCAC GACATGATTACCAGCCTGCACAAGTAGTGTATTTTCAAGAAATTGCGGTATTTACATCTA AGCTACTATAGGACTTGCCAGTCCTTGCAATGCAGTGTTTCACAGAACTCAATTTGTTAT GTGTTGTATGTTAATGCTTGCCGAGCAGCCCTTTTAGACTGTCAATTAAGCATTAAGCAC CTATGCATGCTACTTTATTGGTAAAAAAGTAATTCTGCTTATTTTTCTGTGATGAAGGAT AATACTTGTAATTTTGCTTCATTTTACTGGATCATGTAGATTTAATTCCCGAAGGGAGAG CATGATCGCCTTGTGTTATTTTTATTTTCTTGAGAAAAATATTGTGCTATGTATATGCAC CCTAGATTTGAAGTTTCTTGGATGGTCCAGCTTTCTCAAACAGTGTACTTCTTTTAATTT AAAATAAAATATATGGCTTGTATCTTTAATATCGAAGGTACTCCCTCTATAAAAAGTATA AAAGCA
Protein Sequence (398 aa)
>BART1_0-u53703.006 398 150831_barley_pseudomolecules MESNGTLQVTSTQKLQRKELSGNGSCSEVINIFREAPSASFSSSNKSSSNHGVSGGIEPT KTEIKDMAAMERKSTSVDVAKDVKDINDQEMERNNRVHISSKYDRSHEDCLDSSMKHMQL KPNTVETTYTGQHVASAPLYQMNKTGATGTPDPGTEGSHPDQTNDQVGGANGSMDCIHPT LPVDLKFGSSSTAQPFPHNYSGFAPTMQCQCNQDAYRSSVDMSSTFSNMLVSTLLSNPTV HAAARLAASYWPAADSNIPVDPNQGIFAQNAQGRHIVSPPSMASVVAATVAAASAWWATQ GLLPLFAPPMAFPFVPVPTASFPTADVQRATENCPVDNAPKECQVAQGQGQPEAMIVVAS SGSGESGKGEELKQVMLWATRRSRIALHVVPTHHQVVM