- Transcript BART1_0-u05042.012
- Transcript IDBART1_0-u05042.012
- Gene IDBART1_0-u05042
Exon Structure of BART1_0-u05042.012
Chromosome | Exon | Start | Stop | Direction |
---|---|---|---|---|
chr1H | 1 | 501617123 | 501616727 | - |
chr1H | 2 | 501617377 | 501617276 | - |
chr1H | 3 | 501618080 | 501617967 | - |
chr1H | 4 | 501618560 | 501618447 | - |
chr1H | 5 | 501619133 | 501618955 | - |
chr1H | 6 | 501619663 | 501619229 | - |
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 materialsSample | Treatment | Rep 1 | Rep 2 | Rep 3 |
---|---|---|---|---|
morex | EMB | 0.55026 | 0.000100177 | 1.70278 |
morex | ETI | 31.9613 | 31.7082 | 30.6546 |
morex | LEA | 4.9705 | 1.47204 | 3.7105 |
morex | EPI | 8.67337 | 4.21061 | 10.1983 |
morex | ROO | 2.60766 | 0 | 0 |
morex | ROO2 | 0.821977 | 3.97036 | 2.59152 |
morex | NOD | 0 | 15.7292 | 8.73928 |
morex | RAC | 19.2803 | 24.4953 | 25.167 |
morex | INF1 | 0 | 1.67914 | 2.6856 |
morex | INF2 | 1.81967 | 3.59596 | 3.23001 |
morex | CAR5 | 4.90706 | 0.0924954 | 1.37957 |
morex | CAR15 | 0.152336 | 0 | 0.331726 |
morex | LEM | 19.4886 | 16.0868 | 20.0452 |
morex | LOD | 18.0494 | 12.8185 | 20.7574 |
morex | PAL | 24.6029 | 20.721 | 21.5969 |
morex | SEN | 10.7958 | 6.32793 | 7.82964 |
Homology to Model Species (BLASTX to E-value < 1e-30)
Database | Hit | Frame | E-value | Score | % Identity | Description |
---|---|---|---|---|---|---|
Rice PP7 | LOC_Os08g06280.7 | +2 | 8e-44 | 111 | 74/74 (100%) | protein|LSD1 zinc finger domain containing protein, expressed |
TAIR PP10 | AT1G32540 @ ARAPORT AT1G32540.1 @ TAIR |
+2 | 1e-38 | 108 | 69/75 (92%) | Symbols: LOL1 | lsd one like 1 | chr1:11768253-11769591 FORWARD LENGTH=187 |
BRACH PP3 | Bradi3g16400.3.p | +2 | 5e-44 | 111 | 74/74 (100%) | pacid=32812785 transcript=Bradi3g16400.3 locus=Bradi3g16400 ID=Bradi3g16400.3.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 (1341 bp)
>BART1_0-u05042.012 1341 150831_barley_pseudomolecules GCGTAGTGAGTTTCGACGGGGCCCACATGGCATAGGGGATAAGAAAGAGAATCCACGTTC CCAGCCACAGTGCCGTGCTTTACCTTATCTGCCGCATTCCAACTCATGTTGTTATTCTGA GCAAAACTCGACTCGCTCGCTCGTCTCGACATCTGCACCGGATCGAGCTCAGCAAAGCCC GAGCCGGAGGCGCTCGTCTGCCCGGGGAGCGGCGCCATGCGGGTCCGCCTCTTCCTCTGA ACCGGGCAAGCGCGAGCCGCCTTCTTCCTCCGGCTCGGCGTCGGCGGCGACGACGAGCGT CGGTGGCGGCATAGCACGGTCCAGCGACGAGCAGGTGATTCGGCGCCCAGCTCTGCTGCC GCGACGAGCGCTGAAGGCGGCTCTCCGTCTGTCTAATTTGACGCTCGATTTGCCTCAGGC CTGCACGGCTCAACTGATTTCATGTAGAGGAGGGCAATCTGTTCTCATCCCCTCGACTTC CAGCAGAGCGTGCGAAGTCTCGTCCGCAGCAACGACGACGCCGGCTCAGGCAGCCGCGGG CACGGCAATGCCGGTTCCTCTTGCCCCTTACCCAACTCCTCCTGCGCCCTTCACGCCACC CGCTCCCAATGCAGGGGCTCAAAGCCAACTTGTCTGCTCTGGGTGCCGGAATCTGCTCAT GTATCCTGCCGGCGCAACGTCGGTATGCTGCGCGGTTTGCAGTACCGTGACCGCTGTTCC GGCTCCTGGGACCGAGATGGCGCAGCTAGTTTGCGGAGGATGCCACACTCTTCTGATGTA CATACGTGGTGCCACAAGTGTACAGTGTTCTTGCTGCCACACTGTCAACCTGGCAATGGA AGGTTGCGCATGTAAACTGTGGGAGTTGCCGAATGCTGCTCATGTACCAGTACGGCGCAA GGTCCGTCAAATGTGCAGTCTGCAGTTTCGTGACATCAGTTGGGGCATCATCGGGTGCAG AGCAGAAGCCCAGCAACTGAAATCCTGCAAGTTCATTACGAAGGCAGCTTCCCGAAATAA GAATGCTTTGAGTGCACATGTATAGAGTTCTTCCCAGAAGCAACCTTTTCCTCCCCTCTC CATTTCTCCCTTCGTTGGACCTGGCGAGCTTGCGGAATAAACAAGAGTTTTTGGTAATAC ATAGTTGCTCAAAATTCGTCGAATCATCTGTGTAACTGGGTCAGACAGATACATGAACCC ACCATGTTTATGTTCAAATTTAGCTTCTTTTACTTGTGTTCTATATATTTCAGATTTTTT TTCTTGTGGTCATCGGAAGAATTTCTTCAGATGTGCTTTGCCGTGCGTATTCTTGAACCG ATCTATATCACTGCAGACATG
Protein Sequence (347 aa)
>BART1_0-u05042.012 347 150831_barley_pseudomolecules RSEFRRGPHGIGDKKENPRSQPQCRALPYLPHSNSCCYSEQNSTRSLVSTSAPDRAQQSP SRRRSSARGAAPCGSASSSEPGKREPPSSSGSASAATTSVGGGIARSSDEQVIRRPALLP RRALKAALRLSNLTLDLPQACTAQLISCRGGQSVLIPSTSSRACEVSSAATTTPAQAAAG TAMPVPLAPYPTPPAPFTPPAPNAGAQSQLVCSGCRNLLMYPAGATSVCCAVCSTVTAVP APGTEMAQLVCGGCHTLLMYIRGATSVQCSCCHTVNLAMEGCACKLWELPNAAHVPVRRK VRQMCSLQFRDISWGIIGCRAEAQQLKSCKFITKAASRNKNALSAHV