- Transcript BART1_0-u05042.011
- Transcript IDBART1_0-u05042.011
- Gene IDBART1_0-u05042
Exon Structure of BART1_0-u05042.011
Chromosome | Exon | Start | Stop | Direction |
---|---|---|---|---|
chr1H | 1 | 501617123 | 501616705 | - |
chr1H | 2 | 501617385 | 501617276 | - |
chr1H | 3 | 501618080 | 501617967 | - |
chr1H | 4 | 501618569 | 501618447 | - |
chr1H | 5 | 501619642 | 501618955 | - |
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 | 16.8003 | 9.21094 | 8.00888 |
morex | ETI | 57.0093 | 44.6702 | 50.3055 |
morex | LEA | 12.2058 | 4.85937 | 11.0482 |
morex | EPI | 34.5179 | 22.9642 | 32.4237 |
morex | ROO | 5.22912 | 6.84869 | 1.59278 |
morex | ROO2 | 4.75186 | 3.82835 | 2.99418 |
morex | NOD | 11.9911 | 40.2796 | 13.631 |
morex | RAC | 47.2088 | 46.1802 | 44.1787 |
morex | INF1 | 5.24247 | 6.46832 | 5.60057 |
morex | INF2 | 9.98877 | 10.2472 | 7.71733 |
morex | CAR5 | 13.791 | 10.1994 | 7.97866 |
morex | CAR15 | 0.599872 | 0.589455 | 1.0663 |
morex | LEM | 37.3534 | 21.8667 | 43.8069 |
morex | LOD | 51.2531 | 39.4341 | 51.3734 |
morex | PAL | 38.176 | 44.7734 | 46.981 |
morex | SEN | 27.2103 | 25.0022 | 25.3447 |
Homology to Model Species (BLASTX to E-value < 1e-30)
Database | Hit | Frame | E-value | Score | % Identity | Description |
---|---|---|---|---|---|---|
Rice PP7 | LOC_Os08g06280.7 | +1 | 1e-62 | 201 | 119/126 (94%) | protein|LSD1 zinc finger domain containing protein, expressed |
TAIR PP10 | AT1G32540 @ ARAPORT AT1G32540.3 @ TAIR |
+1 | 2e-54 | 179 | 105/125 (84%) | Symbols: LOL1 | lsd one like 1 | chr1:11768043-11769591 FORWARD LENGTH=154 |
BRACH PP3 | Bradi3g16400.3.p | +1 | 6e-63 | 202 | 120/126 (95%) | 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 (1454 bp)
>BART1_0-u05042.011 1454 150831_barley_pseudomolecules CCCACATGGCATAGGGGATAAGAAAGAGAATCCACGTTCCCAGCCACAGTGCCGTGCTTT ACCTTATCTGCCGCATTCCAACTCATGTTGTTATTCTGAGCAAAACTCGACTCGCTCGCT CGTCTCGACATCTGCACCGGATCGAGCTCAGCAAAGCCCGAGCCGGAGGCGCTCGTCTGC CCGGGGAGCGGCGCCATGCGGGTCCGCCTCTTCCTCTGAACCGGGCAAGCGCGAGCCGCC TTCTTCCTCCGGCTCGGCGTCGGCGGCGACGACGAGCGTCGGTGGCGGCATAGCACGGTC CAGCGACGAGCAGGTGATTCGGCGCCCAGCTCTGCTGCCGCGACGAGCGCTGAAGGCGGC TCTCCGTCTGTCTAATTTGACGCTCGATTTGCCTCAGGCCTGCACGGCTCAACTGTACCT GGCCTTGCTATCATCTTGATGATTCATACTACACCTTTTCCCCGGTAGAATCGCGGTGTT CTCACCGGAATCTCCCACAATTTATGCAGGATTTCATGTAGAGGAGGGCAATCTGTTCTC ATCCCCTCGACTTCCAGCAGAGCGTGCGAAGTCTCGTCCGCAGCAACGACGACGCCGGCT CAGGCAGCCGCGGGCACGGCAATGCCGGTTCCTCTTGCCCCTTACCCAACTCCTCCTGCG CCCTTCACGCCACCCGCTCCCAATGCAGCAATTTCAGGGGCTCAAAGCCAACTTGTCTGC TCTGGGTGCCGGAATCTGCTCATGTATCCTGCCGGCGCAACGTCGGTATGCTGCGCGGTT TGCAGTACCGTGACCGCTGTTCCGGCTCCTGGGACCGAGATGGCGCAGCTAGTTTGCGGA GGATGCCACACTCTTCTGATGTACATACGTGGTGCCACAAGTGTACAGTGTTCTTGCTGC CACACTGTCAACCTGGCAATGGAAGCGAATCAGGTTGCGCATGTAAACTGTGGGAGTTGC CGAATGCTGCTCATGTACCAGTACGGCGCAAGGTCCGTCAAATGTGCAGTCTGCAGTTTC GTGACATCAGTTGGGGCATCATCGGGTGCAGAGCAGAAGCCCAGCAACTGAAATCCTGCA AGTTCATTACGAAGGCAGCTTCCCGAAATAAGAATGCTTTGAGTGCACATGTATAGAGTT CTTCCCAGAAGCAACCTTTTCCTCCCCTCTCCATTTCTCCCTTCGTTGGACCTGGCGAGC TTGCGGAATAAACAAGAGTTTTTGGTAATACATAGTTGCTCAAAATTCGTCGAATCATCT GTGTAACTGGGTCAGACAGATACATGAACCCACCATGTTTATGTTCAAATTTAGCTTCTT TTACTTGTGTTCTATATATTTCAGATTTTTTTTCTTGTGGTCATCGGAAGAATTTCTTCA GATGTGCTTTGCCGTGCGTATTCTTGAACCGATCTATATCACTGCAGACATGATCATGAA CATGAACAGTTTAC
Protein Sequence (122 aa)
>BART1_0-u05042.011 122 150831_barley_pseudomolecules MLRGLQYRDRCSGSWDRDGAASLRRMPHSSDVHTWCHKCTVFLLPHCQPGNGSESGCACK LWELPNAAHVPVRRKVRQMCSLQFRDISWGIIGCRAEAQQLKSCKFITKAASRNKNALSA HV