- Transcript BART1_0-u18690.014
- Transcript IDBART1_0-u18690.014
- Gene IDBART1_0-u18690
Barley RTD
Exon Structure of BART1_0-u18690.014
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 67425398 | 67424059 | - |
| chr3H | 2 | 67425680 | 67425493 | - |
| chr3H | 3 | 67425991 | 67425751 | - |
| chr3H | 4 | 67426259 | 67426201 | - |
| chr3H | 5 | 67426950 | 67426694 | - |
| chr3H | 6 | 67427189 | 67427047 | - |
| chr3H | 7 | 67427332 | 67427278 | - |
| chr3H | 8 | 67427717 | 67427429 | - |
| chr3H | 9 | 67430031 | 67429767 | - |
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 | 0.171198 | 0 |
| morex | ETI | 0.098354 | 0.0392338 | 0.196231 |
| morex | LEA | 0.086691 | 0.317926 | 0.412978 |
| morex | EPI | 0.177201 | 0.32233 | 0.488953 |
| morex | ROO | 0.14211 | 0.370099 | 0.399807 |
| morex | ROO2 | 0.104327 | 0.198926 | 0.168903 |
| morex | NOD | 0.134152 | 0.207372 | 0.265805 |
| morex | RAC | 0.329248 | 0.494821 | 0.382273 |
| morex | INF1 | 0.365108 | 0.407714 | 0.275525 |
| morex | INF2 | 0.458577 | 0.359708 | 0.737344 |
| morex | CAR5 | 0.0812056 | 0.388727 | 0.500001 |
| morex | CAR15 | 0.225907 | 0.0655892 | 0.107577 |
| morex | LEM | 0.0456956 | 0.137839 | 0.27585 |
| morex | LOD | 0.324236 | 0.336888 | 0 |
| morex | PAL | 0.372564 | 0.245014 | 0.179625 |
| morex | SEN | 0.0950346 | 0.253045 | 0.234632 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g08700.6 | +3 | 0.0 | 580 | 300/336 (89%) | protein|GIGANTEA, putative, expressed |
| TAIR PP10 | AT1G22770 @ ARAPORT AT1G22770.1 @ TAIR |
+3 | 1e-157 | 474 | 255/338 (75%) | Symbols: GI, FB | gigantea protein (GI) | chr1:8062398-8067447 FORWARD LENGTH=1173 |
| BRACH PP3 | Bradi2g05226.1.p | +3 | 0.0 | 608 | 314/330 (95%) | pacid=32776210 transcript=Bradi2g05226.1 locus=Bradi2g05226 ID=Bradi2g05226.1.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 (2837 bp)
>BART1_0-u18690.014 2837 150831_barley_pseudomolecules AGTCACGCAGCGCACCGCGCGGGCTCCACCCCTCGCCCCGCGAGGCGAGTGAAATAACGG AGCCAACGCTACACAGACCACCGCCTACCCCTCCCATTACGGAAAAAATCTTTTTCTCGC CTCTCCTCGCCCCTCACATTTTTCTCTCTCCTCCTCCTCCTCCTCTCTGCCTTCGCCTCT GCCTCAGCCTCGCCCGCCGCGCAATCCCGTCGCCGGCGCCGCCGATTCGCCGCCCGAGCT CCGTATTGGGGCGCTCCCGACCGAGTTTCTTGAGCAGGCTCTTAAACTACCAAGTATGTC AGCGTCAAATGGGAAGTGGATTGATGGACTCCAGTTCTCATCACTGTTCTGGCCCCCGCC ACACGATGCGCAGCAGAAACAGGTACAATGCTCATAGTTTAGCTATGTCATATACGCTAT AACTTTGTAAACACCTGATGTTAATGCGACACTTATGTTTTCTTTTCTTTTTGAAGGCAC AAATTTTAGCCTATGTTGAGTACTTTGGTCAGTTCACATCTGACAGCGAGCAATTCCCGG AGGATGTAGCTCAGCTAATTCAAACTTGCTATCCATCAAAAGAAAAGCGGTTGGTAGATG AAGTATTAGCAACTTTTGTTCTCCATCACCCCGAGCATGGTCATGCAGTTGTACATCCAA TTCTTTCACGCATCATAGACGGGACACTGAGTTATGATAGTCATGGTTCCCCATTCAATT CCTTCATCTCCTTATTTACCCAAAGTTCTGAGAAAGAGTACTCAGAGCAGTGGGCCTTGG CCTGTGGAGAGATTCTTAGAGTTCTAACTCACTACAACAGGCCAATCTTTAAAGTTGCAG ACTGTAACAACACCTCTGACCAGGCTACAACAAGTTGTTCTGCACAGGAGAAAGCTAATT ACTCTCCAGGAAATGAACCTGAACGGAAGCCATTGAGGCCATTATCTCCTTGGATCACAG ATATTTTGCTAACTGCACCTTTAGGCATTAGAAGCGACTATTTTAGATGGTGTGGTGGAG TTATGGGAAAATACGCAGCTGGTGGAGAATTGAAGCCTCCAACAACTGCTTACAGCCGAG GAGCTGGTAAGCACCCACAACTCATGCCATCCACCCCAAGATGGGCTGTTGCCAATGGAG CTGGAGTTATTTTAAGTGTCTGTGATGAGGAAGTAGCTCGTTATGAGACAGCAAACTTAA CCGCGGCAGCTGTTCCCGCCCTTCTGCTACCTCCACCGACAACACCCTTGGATGAGCATT TGGTGGCAGGGCTACCCCCTCTTGAGCCATACGCTCGCTTGTTTCATAGATACTATGCAA TTGCCACACCAAGTGCTACACAAAGATTGCTTTTTGGTCTTCTTGAAGCACCACCATCAT GGGCTCCAGATGCACTTGATGCAGCAGTTCAGCTTGTTGAACTCCTTCGGGCAGCTGAAG ATTATGCTACTGGCATGCGGGTATGACATACTGCATGCTGGCTGTTGTTTCAGTCCTCTT CCAAAAAATTGGTTGCATCTTCATTTCTTGCGTGCGATTGGAACTGCAATGTCTATGAGG GCTGGTATTGCTGCCGATACAGCTGCTGCGTTGCTTTTTCGCATACTATCCCAACCAACG TTGCTTTTTCCTCCACTAAGGCATGCTGAAGGAGTTGAAGTGCAACATGAACCACTGGGT GGCTATGTATCATCATACAAAAGACAGGTATGCAGTAGTTTCTGCATCTAGTTAATTTTT CATTATCTGTTCTTCTTTAGTAAAGACTCAAAGCATAGTTAGTCTTTTCTGGGGCTTATG TATTCTAGGCTCTGTTGTTAAGTTCAGGGGATCTTATTATACACTGATTTAGGCATTGTT AGTCACAGTTTACGTTACTACTGTTAGGAAAGCAACTTGTCTATATTGAAGGCCCAAGGG GCATATATATATTACACATGACTTGAGGTGCAAGGAAAGTAAAGATAGACTAATAAGGAC TCCTAGACTAATACTAATAGACTAATAAGGACTCCTAGACTAATACTAATACTTTCTAAC ACCCCCCCTCAAATGCAAAGCGTATGCAATAGCATTGCATTTGAAGAAGTGTAATACTAA AACACAATGATAATCCAAATCCGCGTCTTGAGAGTGTCGTCGTAGCATGAAGAGTCTTCA AAACTTGTCGAGTCGCCGAAGGAGAGAACGAAGAGATGGCACATCAGAGGTAGACACCGC ATCACTTGAAGATACAAGATAAGTATCAAGAGAAGATGGGTTGTCAAAAGAAGATTGCAC ATCAAGAGAATAAAGCATTGTGCAGAAAATCATAGTCCACGACAACCGTCGGCGAAAGAA GCTCGGCGGATAAGGCACGATGGACGTAGATCGACAATGCAAAAGAAGTCTAGAAAATCC TATAGAAAACAATAAGGGCAAATAGGCCACAAAAGTTGCATAGAAAGGATCAGGACCAAA GAAAAGGCTGACGGACAAAGGTATGGTGGACTCGCATGGCATGAGAAAACACAAAATATC AACGGATTTGGTGGACGCAGCGGGAAAAAAAACTGAAAAGCATATATGAAACTAGATGCG GTAGCAGCGGAAGAGAACCATGACGGAAAACAGTAGACTAGCAGCAGCAGGCCAAGTGCC CACGTACAGATGGAATCACACGCACACAGAATCAGGCAACAGCACCAGCTAGCTGCAGCA CGTAGAGCAGCCGAACGAGGAGAGCAACACGTGAGCAGCCACAGTAGGCTGGAGGTGCAG GAGCTGTCTGGGCCAGCAGCAGGGAGGTTGAGCAGCGTGGAGGTGGATGGCAGGCACGGC CATGTTAGGAAAGCAAC
Protein Sequence (342 aa)
>BART1_0-u18690.014 342 150831_barley_pseudomolecules MLMRHLCFLFFLKAQILAYVEYFGQFTSDSEQFPEDVAQLIQTCYPSKEKRLVDEVLATF VLHHPEHGHAVVHPILSRIIDGTLSYDSHGSPFNSFISLFTQSSEKEYSEQWALACGEIL RVLTHYNRPIFKVADCNNTSDQATTSCSAQEKANYSPGNEPERKPLRPLSPWITDILLTA PLGIRSDYFRWCGGVMGKYAAGGELKPPTTAYSRGAGKHPQLMPSTPRWAVANGAGVILS VCDEEVARYETANLTAAAVPALLLPPPTTPLDEHLVAGLPPLEPYARLFHRYYAIATPSA TQRLLFGLLEAPPSWAPDALDAAVQLVELLRAAEDYATGMRV