- Transcript BART1_0-u47383.003
- Transcript IDBART1_0-u47383.003
- Gene IDBART1_0-u47383
Barley RTD
Exon Structure of BART1_0-u47383.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 557776138 | 557775714 | - |
| chr6H | 2 | 557776874 | 557776813 | - |
| chr6H | 3 | 557777077 | 557777014 | - |
| chr6H | 4 | 557777387 | 557777334 | - |
| chr6H | 5 | 557777826 | 557777680 | - |
| chr6H | 6 | 557778002 | 557777898 | - |
| chr6H | 7 | 557778218 | 557778078 | - |
| chr6H | 8 | 557778541 | 557778435 | - |
| chr6H | 9 | 557781982 | 557781883 | - |
| chr6H | 10 | 557782102 | 557782073 | - |
| chr6H | 11 | 557782889 | 557782773 | - |
| chr6H | 12 | 557783122 | 557782999 | - |
| chr6H | 13 | 557783402 | 557783356 | - |
| chr6H | 14 | 557783611 | 557783483 | - |
| chr6H | 15 | 557783901 | 557783826 | - |
| chr6H | 16 | 557784351 | 557784254 | - |
| chr6H | 17 | 557785055 | 557784467 | - |
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 | 0.715434 | 0 |
| morex | LEA | 0.54111 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 1.09243 | 1.37362 |
| morex | INF1 | 0.965735 | 0 | 0 |
| morex | INF2 | 0 | 0.487976 | 1.07444 |
| morex | CAR5 | 0 | 0.729549 | 0.73432 |
| morex | CAR15 | 0.0305969 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0.000207596 |
| 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_Os09g34130.1 | +2 | 0.0 | 857 | 402/488 (82%) | protein|GRAM domain containing protein, expressed |
| TAIR PP10 | AT3G59660 @ ARAPORT AT3G59660.1 @ TAIR |
+2 | 0.0 | 668 | 308/471 (65%) | Symbols: | C2 domain-containing protein / GRAM domain-containing protein | chr3:22034426-22038484 REVERSE LENGTH=594 |
| BRACH PP3 | Bradi4g35301.1.p | +2 | 0.0 | 880 | 423/498 (85%) | pacid=32787900 transcript=Bradi4g35301.1 locus=Bradi4g35301 ID=Bradi4g35301.1.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 (2415 bp)
>BART1_0-u47383.003 2415 150831_barley_pseudomolecules CCGTGGGGCCGACCGTCGTCCCCGACGAGTCAAGATTCGCGTCGCCGAGCAGCAGCAGCA GCAGCAGCCGACTGGCGGGCCACGCGACTCCGACAGCTTCCGCCTCCACCGCCCCCGTCG GCCGTCGGCCGTCGCCTCCACTCCCACTCTCCTCCCAGTCATAACCACCATCCTCCCCTT TCCTTCCCGTCCCTCTCAACTCTCATGGCCATCGCGTGCTTGCCCCACCCCACCCCCGAG AAAGAGAACCCAACCCCCACATGGCTCCGTACCCCGGCACGCTGGGAGATCGAGGTCACC TTCGCCGCCGCGACGGTCCTCGTCCTCGCCGCGCTCTACGCGCTCCTCCGCCCGCGCCGC CGCGCGCCCGCGGCTGCCGCCGACGGCCCCCAGACCGCCGACAAGGTAAGCAAAGCAACG GCTGCTGCTGCCGGTCCGCCAGTGTGCAAATTTGGGCGCGGCGACGAGCGGCCGCCTGTT CTAACGTCGCGACCGTTTTTGTTTTGGCCTTCGTCTGCTCTGCTCCGCTCTGCGCGCCGG GATCGCCGCTCAGTGTCACGAGGGAGCGCCGCCGGCGTATGCTGTCAAGCTGAAGCTGCT GGCCGCCAAGGATTTGATCGCGGCCAACTTGAACGGCACCTCCGACCCGTACGCACTCAT CACCTGCGGCCAAGATAAGCGTTTCAGCTCCATGGTTCCTGGCTCAAGAAACCCAATGTG GGGAGAGGAATTCAATTTTGTTGTTGACTGTCTTCCTGCAAAGATAAAGGTGGAACTATA TGACTGGGACCTAGTATGGAAAAGCACAACACTTGGTTCTGTTACAGTTCCAGTTGAGTC TGAGAAGCAGAGTGGACCAGTTTGGTATACACTTGACAGCTCATCAGGGCGGGTTTGTCT CCATATCAAGGCAATCAGGGTTAATGAGAGTTCCTCCAGGGCTCTAAACAACTCTGCCGA GGCTGATGCTCGTAAAAGGATGTCCTTAGACAAAGAAGGCCCTATTGTCGTTCACCAAAA GCCAGGTCATTTACAGACAATTTTTGGGCTACCTCCAGATGAGGTTGTTGAACACAGTTA TTCATGTGCACTTGAGAGGTCATTTCTGTATCACGGCCGCATGTATGTGTCTTTATGGCA CATTTGCTTCTATTCGAACATCTTCTCTAAGCAGATTAAGGTTGAGCTCCCTTTGAGAGA TATTGATGAGATAACAAAAAGCCAACTTGCAGTTATTAATCCTGCAATTACGATATTTCT TCGAACGGGAGCTGGAGGACATGGAGTTCCTTCCTTAGGATGCCCTGATGGAAGAGTTAG ATATATATTTGCATCGTTTTGGAACAGAAACCACACAATTAGAGCACTGGAACAAGCTGT GAAGAACTTCCATACCATGATAGAGGCTGAGAAACAGGAACGTGCTCGATCTGCATTACG TGCACTCAGTGGCTCAAGAAAAAATAGCATGGAGATAGATGTTCCAGAAGATTGTGCTGA TTTAATAGGTCTATTACAACCTTTTGTCAAAGAAGAAGTTCTAGTCTCTGTATTTGATGG AACATTTCCGTGTACTGCAGACCAGTTTTTCAATAATCTTATAAGTGATGACTCAACTTA CACAACAGAATATCGAACAGCTCGTCAGGATAAAGATATCAAACTGGGCCAGTGGCACCT TGCAGACGAGTATGATGGTCAGGTGAGAGAACTTAACTGTAAATCCATGTGCCACAGTCC GATGTGCCCTCCATATTCAGCAATTACAGAGTGGCAGCATACGGTTCTTTCAGCTAACAA AACCGATCTGGTATTCGAGACTGTACAACAAGTACATGATGTTCCCTTTGGTTCCTATTT TGAGATACACTGTAGATGGTCTGTGAAAACCATCGATTCTAGTTCGTGCAGTGTTGACAT TAGTGCTGGTGCACATTTCAAGAAATGGTGCATAATGCAGTCTAAGATAAAGAGCGGTGC TGTGGACGAGTTAAAGAAGGAAACTAGAGAAATGTTAGGGTTTGCGGAGTCGTATATGCT AAAAGTTAGCTTCCCTACCCAAGAAGACAACACGGAGCCAGACGCAGATGACAAACCTGG TGATCAGTAACTCATGACAGCCTATTTGAGCATGCTCTCTTCTAATGGCAGCCACGGTCC CGTGATGGTGGTTTATGATGATACCCAGTGGACCTGTAACTGTAACTAGTCCAAATTTGA TATGATTAGCTGCCTTAAAGAAGAAAAATGTTTAGGAAGTCCTATATTGTGTAAACTTTT GGCTTACGTATATCTCTTTTTCTTTAAAAGAGAAGGATAACCCTGGCCTCTGTATCATTG CATGCACACAACCATATTTATTAAACGACGAGTATCAAGATCTTTTAAAAAAAAGAGGCA TCGCCCTGGCCTCTG
Protein Sequence (472 aa)
>BART1_0-u47383.003 472 150831_barley_pseudomolecules MVPGSRNPMWGEEFNFVVDCLPAKIKVELYDWDLVWKSTTLGSVTVPVESEKQSGPVWYT LDSSSGRVCLHIKAIRVNESSSRALNNSAEADARKRMSLDKEGPIVVHQKPGHLQTIFGL PPDEVVEHSYSCALERSFLYHGRMYVSLWHICFYSNIFSKQIKVELPLRDIDEITKSQLA VINPAITIFLRTGAGGHGVPSLGCPDGRVRYIFASFWNRNHTIRALEQAVKNFHTMIEAE KQERARSALRALSGSRKNSMEIDVPEDCADLIGLLQPFVKEEVLVSVFDGTFPCTADQFF NNLISDDSTYTTEYRTARQDKDIKLGQWHLADEYDGQVRELNCKSMCHSPMCPPYSAITE WQHTVLSANKTDLVFETVQQVHDVPFGSYFEIHCRWSVKTIDSSSCSVDISAGAHFKKWC IMQSKIKSGAVDELKKETREMLGFAESYMLKVSFPTQEDNTEPDADDKPGDQ