- Transcript BART1_0-u37558.006
- Transcript IDBART1_0-u37558.006
- Gene IDBART1_0-u37558
Barley RTD
Exon Structure of BART1_0-u37558.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 550826432 | 550826209 | - |
| chr5H | 2 | 550827463 | 550826843 | - |
| chr5H | 3 | 550827855 | 550827772 | - |
| chr5H | 4 | 550828824 | 550828472 | - |
| chr5H | 5 | 550829010 | 550828974 | - |
| chr5H | 6 | 550829877 | 550829819 | - |
| chr5H | 7 | 550830365 | 550829993 | - |
| chr5H | 8 | 550830694 | 550830568 | - |
| chr5H | 9 | 550831258 | 550830928 | - |
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 | 0.770144 | 0.895321 | 0.785278 |
| morex | ETI | 0.880202 | 1.32984 | 0.547874 |
| morex | LEA | 1.09382 | 0.464203 | 1.50567 |
| morex | EPI | 1.80967 | 4.27825 | 2.16259 |
| morex | ROO | 0 | 0.676052 | 0.385907 |
| morex | ROO2 | 1.26008 | 1.26708 | 0.760412 |
| morex | NOD | 1.39637 | 1.02005 | 1.43379 |
| morex | RAC | 1.653 | 1.12246 | 1.28641 |
| morex | INF1 | 4.2493 | 2.17214 | 3.57924 |
| morex | INF2 | 3.24993 | 3.03254 | 2.89633 |
| morex | CAR5 | 2.17463 | 1.14575 | 3.21632 |
| morex | CAR15 | 0.591797 | 1.01735 | 0.556571 |
| morex | LEM | 1.18282 | 0.238188 | 0.972861 |
| morex | LOD | 1.07113 | 0.99002 | 0.643768 |
| morex | PAL | 0 | 0.999695 | 0.700644 |
| morex | SEN | 0.853477 | 1.02172 | 1.24708 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g32940.1 | +3 | 0.0 | 544 | 314/425 (74%) | protein|expressed protein |
| TAIR PP10 | AT4G24900 @ ARAPORT AT4G24900.1 @ TAIR |
+3 | 4e-58 | 203 | 157/399 (39%) | Symbols: | unknown protein; Has 119 Blast hits to 96 proteins in 40 species: Archae - 0; Bacteria - 0; Metazoa - 81; Fungi - 0; Plants - 34; Viruses - 0; Other Eukaryotes - 4 (source: NCBI BLink). | chr4:12814867-12817388 FORWARD LENGTH=421 |
| BRACH PP3 | Bradi4g34656.1.p | +3 | 0.0 | 581 | 323/429 (75%) | pacid=32784850 transcript=Bradi4g34656.1 locus=Bradi4g34656 ID=Bradi4g34656.1.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 (2209 bp)
>BART1_0-u37558.006 2209 150831_barley_pseudomolecules GCTGAGGCCCAAACACGCGCGAGCGAACGCCTGGGCCGCCGCGACCGACAGGCCAGGAGC CCCGCCCCGCGATGCCGCCGAAGCCGCACGCCGCCGGCGGCGGCAGCTTCGAGTACTGCG AGCTGTGCCGCCGCAACCACGACCAGGGCCGGCGCCACCGCTACTTCCCCGCTCACCGCG CCGCTCTCGCGGCCGCGCTCTCCGGCTTCCACGCCAAGCTCGCCGACCTCCGCCGCGCGC TCCTCCACCCCTCCACGCCTGGCCCCCGCTCCCGCCTCTGGTGCCCCTTCTGCTCCGCCG ACCTCGTCGACCTCGACAGCCGCTTCGCCTGTAGCAATGCGATTTACCATCTCGCGAGCG AGGAGCACCTCAAGGGCGTCAAGGATTTCCTGCGGAAGCATGGGGGCGGGATGGATCACG TTGATTCATTTAGGATTTCAGAGGATGAGCTTGCGAAGTGGGAGAAGGGCTGTGAGTCAT CGATTACAGACGAACAGACATTGACCAAGGGCCTGGTTGGACCATCTCTGGGGCCGTTGA AAGATATCCAAAATGAATCTAGCTCTAAAATTTCGGATAGTTTTGCTGAAACTGACATCC CATCTTTTCATAATACTGCATCTTGTGTTGTTATGCCTTTACAAAGTCCTACCAATGGGG CCTATTACCCCACTAGTACAGCGTGTTACGGATCTTCCAACTCCGGAAGTGTTGCTTATT CTGCTCCTTTTGGTACTTCCGGACTGCCCGTCAAACCTTGGGTCACAACACATGAGCATC AGGGTATGCCGAGTACAAACATGTTTCATAGTGCTGATGCACAAATGAAAGGTGCTCAAC CTACTTCCCTCGGAAATGGACCAAATTCACCGGCTTCTTCTTTTGTACATGTCCAACAGG GCCACTCCGGAGGAAAATTCAATCAGGGACTGAAAGCAAATGTGCATACTGGTGCTCCTC CTCCTTGGTTAGAAGCTAGTGAGCATGATCCAAAGAATGTGTCACTTCTATCTTCTCTGA AAGGAAAATCGAGAAAACTCAACCCAAAGCGTGTTGGAGCTGCATGGGCAGAGAGGAGAA GAGCTGAAATGGAAATGGAAAAGCGAGGTGAAGTTGTTCCAGAAATGCCTGATGCTAGTT GGCTCCCTAATTTTGGTGGTGTCTGGCAATCTGGTTCGCGAAAGGAATCTAGGAAAGAGT TTGAGAAAAATCATAAGCTTCAAGAGAAGAACAATCCTGAGTTACTCCCTGAGATAAAAC CATATATCAGCAAAAGGATGCGTGTAAGCTCTAATAAAGATGGACAACCCGACAGCACTG TAGAATAGTGAGGAGATGTACATCGTCCTGCCAGATGCTTTATGGAACAGAAATCAGAGG TGCTGCAAGGAAGTCTGCACATGTGCAATTAAATGTGACATTAGGGTACTCGTAGGCGGT CCTGCTTTTGTGTTTTCCAAATGCAACGGAACCAACTGTTTCTGGCCTTTCCGTCGCTGT GCTGTTTGTTGTGTGTCAATTGTGGTCATGGTTTCCTGTAGGAGTTGTGCAAAACGGTGC AGTGGGCAGCTCTGGATCGTGTCGCGGTTGATGGAAAGTCCAGATCTCTTGGGTGCATGA TTGAAGAGATCATCATCTGTAGTATGACAGCATGTGCAATGCCAATCAACCCCAGTGAAC AAAAGGCGGGAACCCTTTCCAGGAAGAGTTAGCTGGCTTGTAGTGGTAAAAAAAACTTTT CATTATGTTGGTTGGTGCCTTGTTGGTCGTTTGATCGAGCGTGGATTTATTTGCTCCTGA TGAGGTGATGACAGGGAGGGTCTGGAACATGGATGATTGATGGTTGCAGCTGAAGGGGTC GCAGTTGGAGCAAACTGAGAGCCTAGCCCCTGAGCTTGAGCTTGTTTGTCTGATGACATG TGAAGAGACCACGCCATTTTACTATCCTACCTGAGCTTTGGCATCTACTCCTTCCGTACC AAAATATCTTTGGGCCTGATACCTAGGACGCTCTACAGGGAACGCATTTAGTTGCAGGAC AGGAGATCTCTCTCCTAAGCAATTATTGCAAGCGATGTACGTACGTAGCGTACGTTGTGG AAAAACACCCATTACCACCATGTCGACGGTGCACAGGCGCAGATCGAACCTGCAGCGTAC GGTCTTCTTCTCCTCCCAAAAGATGACAACCCCGAGAGGCGCTCGCTCG
Protein Sequence (418 aa)
>BART1_0-u37558.006 418 150831_barley_pseudomolecules MPPKPHAAGGGSFEYCELCRRNHDQGRRHRYFPAHRAALAAALSGFHAKLADLRRALLHP STPGPRSRLWCPFCSADLVDLDSRFACSNAIYHLASEEHLKGVKDFLRKHGGGMDHVDSF RISEDELAKWEKGCESSITDEQTLTKGLVGPSLGPLKDIQNESSSKISDSFAETDIPSFH NTASCVVMPLQSPTNGAYYPTSTACYGSSNSGSVAYSAPFGTSGLPVKPWVTTHEHQGMP STNMFHSADAQMKGAQPTSLGNGPNSPASSFVHVQQGHSGGKFNQGLKANVHTGAPPPWL EASEHDPKNVSLLSSLKGKSRKLNPKRVGAAWAERRRAEMEMEKRGEVVPEMPDASWLPN FGGVWQSGSRKESRKEFEKNHKLQEKNNPELLPEIKPYISKRMRVSSNKDGQPDSTVE