- Transcript BART1_0-u53703.085
- Transcript IDBART1_0-u53703.085
- Gene IDBART1_0-u53703
Barley RTD
Exon Structure of BART1_0-u53703.085
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 385863972 | 385861708 | - |
| chr7H | 2 | 385865064 | 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 | 385872393 | 385872147 | - |
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 | 0.0584136 | 0 |
| morex | LEA | 0.114121 | 0 | 0.196359 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0.06058 | 0 |
| morex | ROO2 | 0 | 0.169976 | 0 |
| morex | NOD | 0.311078 | 0.0998968 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0.0983694 | 0.0900707 |
| morex | INF2 | 0.0529795 | 0 | 0.131483 |
| morex | CAR5 | 0.0965922 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.125523 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0.0164425 | 0 | 0 |
| morex | SEN | 0.0783168 | 0.106515 | 0.0961661 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g06110.2 | +1 | 0.0 | 549 | 369/539 (68%) | protein|MYB family transcription factor, putative, expressed |
| TAIR PP10 | AT1G01060 @ ARAPORT AT1G01060.4 @ TAIR |
+1 | 4e-32 | 134 | 60/71 (85%) | Symbols: LHY, LHY1 | Homeodomain-like superfamily protein | chr1:33992-37061 REVERSE LENGTH=644 |
| BRACH PP3 | Bradi3g16515.1.p | +1 | 0.0 | 597 | 393/532 (74%) | 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 (4143 bp)
>BART1_0-u53703.085 4143 150831_barley_pseudomolecules TCCCGGTTGGCTTCGTCCGGAAGCATCGGCCGGTGGCGGCAGAGAGAGGAGCTCCTGCGC CCGGCGCGGCGGTCGGTTGAGGTGGGTGGCAGGGATCGGGCCTGGGATTCCGTTTTTCAT GATGAACCGCTGGGCTGTTGATTTGATTTTATGCACGGGGTGGTGGCTTGGTGCAGGCCG CCGCGCGGAGGGCGGGCTGGGCGGGCGACGTGGCCACCGGGGTCAGCTTGCTTGCTGCTC GCCCGAGTAACTTTCAGGTGTAGGAAGTGTTAAGGGGATACATAATCGGTTTTGAGCTGC GAGGCCCTGCATTTCTTCTGCCTGCTGTTTGATTCACGGCCCACTCTTTTCCTTCTATCC ATTCAAGCAAAGTACTGGAATTTCTGAGCCCAATTTATTCAGGTCATGGGATTTGTTTGT CCTTAGCAGAGTTGAAGATAAAGAGAGGAAGGCTAAACTCTGCTGATCCGGTTCATGCGA GCAATGAGCCAACTGCAGTAGAGGTTTACAGTAGAGAGGTTTAGGGGGAGGTATGAGATA CTACTCGCGTCAGGTCCAGCGTTTGGCTGGAGACACAGAAGGAGGAGTGCTGTTGTTTGT AGACGCCCTCAACTCCAAGTAACAAAGCGACCAGTTGTCAGCACTTCCTTTTGTTTTCGC ATTTCCCTGGAATTGGAGATGGAGATAAATTCTTCGGGTGAGGAAACGGTGATAAAGGTG CGAAAGCCGTACACAATAACAAAACAGCGGGAGCGGTGGACTGAGGCAGAGCACAAACGG TTCCTTGAAGCCCTCAAACTGTATGGCAGAGCTTGGCAGCGCATAGAAGAGCATGTTGGG ACAAAGACGGCCGTGCAAATCAGAAGCCATGCTCAGAAGTTCTTCACAAAGGATTGCAGC CTCATCCTCTCAGAGGTTTCTTTGCCAGACCCATGGAGGAGGGAGGAGGCTAAGGCTAGT CTTTTCTTCCCTTGTTTTGACCACGATGGTTTCTGGGTCCTCAAATTTCATACTTTGCTC ACCAGCCATTACCAATCTGACCTTGCTCAATATAGCAGGTTGGTTGTTGGGATGGACAGC TCTACCCTATTGTACATATACATATATATATAGTAAATGACGCAACTAACGGTTCAGTAC ACCAACTTAGCTCATAGTTACTCGCCAATAAGTTTGTAAAAGCTCAGGGTGGAAACTGTC AGCCTTCAAGTTCAATCTAACCAATAGTTTAAAGGTTTTGTGCATCGGTTGATGGAGAGG CTGGAGAGATGTCTCTTCCATAATCCAAAAACAATTTTACAGTGCTATTTTCTTACCTTT TATGTGGAATAGAGAAGAGCCAGTAGAGTGAAAAAGAAACCACCATCCACTCTTTCAGTC CTCCACCCGCTTGAGGGTTTAGGCTGTAGAATGCTGTATTTGTCAGGGTTAGGATACCGG AACTGCCCCAAATTCCCATTGTAGGCGGTTCTGGTTTCTTGCAGAACCTGGCCAGTTAGT CTGGTTGCCCAAAAATGCCTTATTTTCTGGTGCTCTGAATCTTCATTTTCATTTTGCAGA TTTCAAATTGAAGATATAAATTACAGACCTATGCAACAATAGATAGTTCAATTTTCCAAT TCTAGTTTATCACCACTGTCTGTCTGTATCTAACTATTTGGGAAATTGCAGTTGGAAAAG GAAGCTATCAACAATGGTACTTCTCCAGGACAAGCTCATGATATAGACATACCTCCACCA CGGCCTAAAAGAAAACCTAACTGTCCATATCCTCGAAAAGGTTGTCTCAGCTCTGAGACA CCCACCAGAGAAGTTCCAAAATCAAGTGTTAGCTTGAGCAATAGCAATTCACAAATGGAA AGCAATGGAACTCTTCAGGTCACCAGCACTCAGAAACTTCAAAGGAAGGAGTTGTCTGGA AACGGCAGTTGCTCAGAAGTTATTAATATCTTTAGAGAAGCACCATCTGCCTCATTTTCT TCCTCTAACAAGAGCTCTTCAAATCATGGTGTCTCTGGGGGAATTGAACCGACTAAAACA GAAATCAAAGATATGGCAGCCATGGAAAGGAAATCTACTTCCGTTGATGTGGCGAAGGAT GTAAAAGATATTAATGACCAGGAAATGGAAAGGAACAACAGAGTCCACATCAGTTCTAAA TATGACCGTTCTCATGAAGATTGTTTGGATAGCTCAATGAAACACATGCAGTTGAAGCCA AATACTGTGGAGACAACATACACGGGTCAACATGTTGCAAGTGCTCCACTCTACCAAATG AATAAGACTGGGGCAACTGGCACTCCAGACCCTGGAACTGAAGGAAGTCATCCTGATCAA ACGAATGATCAAGTGGGAGGAGCTAATGGAAGTATGGACTGCATCCATCCAACACTTCCC GTGGATCTAAAATTTGGCAGCAGCTCCACAGCGCAGCCCTTTCCCCACAACTATTCAGGC TTTGCACCAACGATGCAATGCCAGTGCAACCAAGATGCCTACAGGTCATCTGTTGATATG TCGTCCACCTTCTCCAACATGCTCGTTTCCACATTGTTATCAAACCCCACAGTACATGCA GCTGCAAGGCTTGCAGCATCATACTGGCCAGCAGCAGACAGCAACATCCCTGTCGATCCA AATCAAGGAATTTTTGCTCAGAATGCTCAAGGAAGACATATTGTTTCTCCTCCAAGCATG GCTTCTGTGGTAGCAGCTACAGTTGCTGCGGCTTCGGCATGGTGGGCAACACAAGGTCTT CTCCCTCTTTTTGCTCCCCCCATGGCTTTTCCATTTGTCCCAGTTCCTACCGCTTCCTTT CCCACAGCGGATGTCCAGCGAGCTACAGAGAACTGCCCAGTGGACAACGCACCAAAGGAA TGCCAAGTAGCTCAGGGGCAAGGTCAACCTGAAGCTATGATAGTTGTAGCATCTTCTGGG TCCGGCGAGAGTGGAAAAGGAGAGGTGTGTCCTCACACTGAGTTAAATATATCTCTGGCT GATAAAGCTGAGACAACACCTGCCACAGGAGCTGAAACAAGTGATGCTTTGGGCAACAAG AAGAAGCAGGATCGCTCTTCATGTGGTTCCAACACACCATCAAGTAGTGATGTAGAGGCA GAACATGTTCCTGAGAACCAAGATCAAGCTAACGACAAGACACAGCAAGCATGTTGCAGT AATTCTTCAGCTGGTGACATGAACCATCGCAGGTTTAGGAACATTTCAAGCACGAATGAT TCATGGAAGGAAGTTTCCGAGGAGGTTGTAGTCTACCAGCATTGCCGAATTTCATTTCTA TGTTACTCTTGAGCATCTATCACTGCTTTTCTAATTCACATTTCTGCTGTCAGGGTCGTA TGGCTTTCGATAAACTGTTCAGTAGAGGAAAGCTTCCCCAAAGCTTTTCTCCTCCACAAG CAGAAGGATTGAAGGTGGTTCCCAGAGGGGAGCAAGATGAAGCTACTACGGTGACGGTCG ACCTCAACAAGAGTGCTGCAGTTATGGACCATGAACTTGACACATTGGTTGGGCCAAGAG CTTCCTTTCCCATTGAATTGTCACACCTGAATATGAAATCCCGCCGGACAGGCTTCAAAC CTTACAAGAGGTGCTCGGTGGAAGCAAAGGAGAATAGGGTGCCGGCTGCTGACGAGGTTG GTACCAAAAGGATTCGCCTTGACAGCGAACCCTCCACGTGATTTACTTCCCACGACATGA TTACCAGCCTGCACAAGTAGTGTATTTTCAAGAAATTGCGGTATTTACATCTAAGCTACT ATAGGACTTGCCAGTCCTTGCAATGCAGTGTTTCACAGAACTCAATTTGTTATGTGTTGT ATGTTAATGCTTGCCGAGCAGCCCTTTTAGACTGTCAATTAAGCATTAAGCACCTATGCA TGCTACTTTATTGGTAAAAAAGTAATTCTGCTTATTTTTCTGTGATGAAGGATAATACTT GTAATTTTGCTTCATTTTACTGGATCATGTAGATTTAATTCCCGAAGGGAGAGCATGATC GCCTTGTGTTATTTTTATTTTCTTGAGAAAAATATTGTGCTATGTATATGCACCCTAGAT TTGAAGTTTCTTGGATGGTCCAGCTTTCTCAAACAGTGTACTTCTTTTAATTTAAAATAA AAT
Protein Sequence (485 aa)
>BART1_0-u53703.085 485 150831_barley_pseudomolecules MESNGTLQVTSTQKLQRKELSGNGSCSEVINIFREAPSASFSSSNKSSSNHGVSGGIEPT KTEIKDMAAMERKSTSVDVAKDVKDINDQEMERNNRVHISSKYDRSHEDCLDSSMKHMQL KPNTVETTYTGQHVASAPLYQMNKTGATGTPDPGTEGSHPDQTNDQVGGANGSMDCIHPT LPVDLKFGSSSTAQPFPHNYSGFAPTMQCQCNQDAYRSSVDMSSTFSNMLVSTLLSNPTV HAAARLAASYWPAADSNIPVDPNQGIFAQNAQGRHIVSPPSMASVVAATVAAASAWWATQ GLLPLFAPPMAFPFVPVPTASFPTADVQRATENCPVDNAPKECQVAQGQGQPEAMIVVAS SGSGESGKGEVCPHTELNISLADKAETTPATGAETSDALGNKKKQDRSSCGSNTPSSSDV EAEHVPENQDQANDKTQQACCSNSSAGDMNHRRFRNISSTNDSWKEVSEEVVVYQHCRIS FLCYS