- Transcript BART1_0-u37955.001
- Transcript IDBART1_0-u37955.001
- Gene IDBART1_0-u37955
Barley RTD
Exon Structure of BART1_0-u37955.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 564069900 | 564069128 | - |
| chr5H | 2 | 564070540 | 564070357 | - |
| chr5H | 3 | 564070767 | 564070626 | - |
| chr5H | 4 | 564071554 | 564071423 | - |
| chr5H | 5 | 564072352 | 564071647 | - |
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 | 1.78205 | 3.4337 | 2.51518 |
| morex | ETI | 3.40159 | 3.92026 | 2.53467 |
| morex | LEA | 2.63718 | 0.316679 | 2.06922 |
| morex | EPI | 1.24803 | 1.61105 | 1.45686 |
| morex | ROO | 3.96114 | 1.45941 | 1.77081 |
| morex | ROO2 | 3.9817 | 2.62499 | 2.71155 |
| morex | NOD | 2.46442 | 2.91902 | 7.95973 |
| morex | RAC | 6.762 | 7.67413 | 9.90535 |
| morex | INF1 | 13.0428 | 17.1449 | 19.5466 |
| morex | INF2 | 18.2276 | 16.6293 | 20.5908 |
| morex | CAR5 | 6.13513 | 4.09303 | 7.23324 |
| morex | CAR15 | 2.80136 | 1.67099 | 3.11575 |
| morex | LEM | 3.39261 | 2.68292 | 1.54612 |
| morex | LOD | 6.29698 | 6.34689 | 5.00531 |
| morex | PAL | 7.56761 | 4.6957 | 5.01911 |
| morex | SEN | 0.590487 | 2.42463 | 0.732288 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g36140.1 | +3 | 2e-54 | 189 | 101/155 (65%) | protein|RNA recognition motif 2 domain containing protein, expressed |
| TAIR PP10 | AT3G26120 @ ARAPORT AT3G26120.1 @ TAIR |
+3 | 9e-34 | 137 | 66/152 (43%) | Symbols: TEL1 | terminal EAR1-like 1 | chr3:9546398-9549186 FORWARD LENGTH=615 |
| BRACH PP3 | Bradi4g36020.1.p | +3 | 5e-86 | 271 | 146/217 (67%) | pacid=32789987 transcript=Bradi4g36020.1 locus=Bradi4g36020 ID=Bradi4g36020.1.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 (1937 bp)
>BART1_0-u37955.001 1937 150831_barley_pseudomolecules CGTGATCAGCTTTTTTTTTATCGAAATACGACGGGGCTAGTAAACCCGGAACGGAGGAGG TTGTATACTGCAATGAAGGCTGAGGCTTACTGCGGTGGTGCCACCTGGTGCGTGATACAG GGGGCAGGTGGTGCTCCTCCAAGTCCTCCTCGGGTCGGTCTTGCCCGGGTCCGGTCCTCC TTCCTCCTACTTTTCCCCAGCTCAAAAGAAAAATCAAGTTAGCCATGGCCGCCGCCTACA CCTCGCGCCTGGGCCTGCCCCCCGCCGCGCACCCGTACGACGACGAATCCGTGGCCTGCG CCCTAGGGCATCTCTACCCCACCAAGGATCCGTTCGCCCTGCCGGCCAGCTGCCTCCTCC CGCCGCCCGAGCTGCCGCTGGCCTTCGGGTTGCCCGCCGGCGGTCTCGCCCCCGTCTGCT GCTGCGCCGACGCCGCGGGGGCGCCCGCGTTCCCGCCCTTCCCATGGGCGAACGTGCCCT CGCCGCCAGTGCCGCCGCGTTGCGGCATCACGGAGATCGACGAGTTCCGGGAGGTGGAGT CGGAGGATAACCTCTCCCCTTGTTCCGTCCTCACGCCCTGGAGGAGGCCGACGCCCGCCT CGGCGCTGCCTTCGCCTCCGCCCCTCGTGGTCGGGGGGAAACGGGCCTTCGACCCCACCA GCGAGAAGACTTCTCTGATGATCTGCAATATCCCCAACGGATTCGTGAAGCGGAGGTTCA TGGCGATTCTGGACCAGCATTGCGTCCATGAGAACGACAATCCTGAATGGCGTGTCGTTG GGGGTGGCAAGTTCGTGAGATCGGAGTATGACTTCCTCTACATCCCAATAGACTTCAGGA CGAAGTACAACAAGGGCTATGCGTTCGTCAACATGACGACGGCGACTGCAGCGCGGCGGC TCCATGCTTTTCTCCACGGGCACCGCTGGGCGCTGGCGGGCTCTCGGAAGGTATGCGAGG TTGTGCACGCGGACATCCAGGGGGTGGATGCTTTGTCAGCGCACTTCTCCAGCTCCAAGT TCCCATGCGGTAACAAGGACTTCCTGCCAGTGCGCTTCGGCCCGCCGCGGGACGGCCTTC GGCCGACGGTGGAGCGTGTAATTGGCCGCACGGTGGTCCACCGTCCCGCTGATCAATCTG CTCACCCCACGCCGCGTGCTGCACAAAGAGGAGGCAAATGGAAACCTGGTGCAGTGGGGA ACAAAACTGTTTGAGCTGGTGGCTACTGGCTAGTGATGTCTTTGCTTCGTCGCGAGGATG GAGGCCTACTCACCTTAGGGTAGGTGCTTAGTGTGCTTGGTTACCCAAGATGATCAAGTT AGATGGTTCTTTTGGGGCTGCAGGAGTATCTTCTAGTGTCTGTATGACTGTATCCTACCT TGGAGATGTTGGCTTCATTTGTCTTCCCTAGGTAGCAGCAATGCTTGGTGGTTCTGCCAT CCGATTTCCTTTGAGTTGTCACTAACTGTACTCATCTGCCCTGAACTTTCTTAGATTGGT TTGTGCATCTGTTCGCATGTTAACCGTATGTTATCCGCCCGTGTATGTTTTTGAAGATTT GGCATCCAGTTGCGATGTGTGATGTTGATGGCGCTGAAAGAAAAGGTTAATGGTGGGGAG AGTTTTTTTGGCTCCCCGAGCACCAATGTGCTGTTTTTCTGCCCGAAGTCTCTGCCCTTT GATTGTTGGAATAATAAAGTATCCCCTCCGTAAACAAATACTCCCTTCGTCTTAAAATAA GTGTCTTAACTTTGTATTAGTTTTAATATAAATTTATACTAAGCTTGAGACAGTTATTTT GAAACGGAGGAAGTATAGTATAAGAGCGTTCAGATCTAAACGTTCTTATATTTTTTTTAC AGAGGGAGTAACTTTTAGGCATAGCTGCCCTCGGTTATCTCTGGAGCAAGCTAAGGTTAT CGTCAGATACATTGGAG
Protein Sequence (329 aa)
>BART1_0-u37955.001 329 150831_barley_pseudomolecules MAAAYTSRLGLPPAAHPYDDESVACALGHLYPTKDPFALPASCLLPPPELPLAFGLPAGG LAPVCCCADAAGAPAFPPFPWANVPSPPVPPRCGITEIDEFREVESEDNLSPCSVLTPWR RPTPASALPSPPPLVVGGKRAFDPTSEKTSLMICNIPNGFVKRRFMAILDQHCVHENDNP EWRVVGGGKFVRSEYDFLYIPIDFRTKYNKGYAFVNMTTATAARRLHAFLHGHRWALAGS RKVCEVVHADIQGVDALSAHFSSSKFPCGNKDFLPVRFGPPRDGLRPTVERVIGRTVVHR PADQSAHPTPRAAQRGGKWKPGAVGNKTV