- Transcript BART1_0-u41201.007
- Transcript IDBART1_0-u41201.007
- Gene IDBART1_0-u41201
Barley RTD
Exon Structure of BART1_0-u41201.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 659416282 | 659416215 | + |
| chr5H | 2 | 659417266 | 659416951 | + |
| chr5H | 3 | 659417758 | 659417637 | + |
| chr5H | 4 | 659418191 | 659418101 | + |
| chr5H | 5 | 659419393 | 659419334 | + |
| chr5H | 6 | 659419657 | 659419490 | + |
| chr5H | 7 | 659420969 | 659420632 | + |
| chr5H | 8 | 659422494 | 659421811 | + |
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 | 19.289 | 16.3234 | 15.236 |
| morex | ETI | 10.9813 | 8.2566 | 13.6755 |
| morex | LEA | 10.7295 | 6.30068 | 10.4417 |
| morex | EPI | 6.56262 | 9.30441 | 8.14807 |
| morex | ROO | 11.0469 | 11.1756 | 2.85429 |
| morex | ROO2 | 9.67752 | 12.538 | 11.3569 |
| morex | NOD | 10.3719 | 14.9925 | 17.7804 |
| morex | RAC | 21.4434 | 18.7337 | 18.5986 |
| morex | INF1 | 45.9852 | 54.5502 | 50.4864 |
| morex | INF2 | 42.2053 | 61.1563 | 40.6778 |
| morex | CAR5 | 23.9445 | 19.0953 | 18.3588 |
| morex | CAR15 | 9.41301 | 12.0236 | 9.3792 |
| morex | LEM | 17.3253 | 17.6741 | 13.9555 |
| morex | LOD | 22.9265 | 27.3883 | 17.4533 |
| morex | PAL | 15.2916 | 15.5212 | 16.4706 |
| morex | SEN | 7.72391 | 11.0704 | 6.54877 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g63300.1 | +3 | 6e-174 | 502 | 294/446 (66%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G11860 @ ARAPORT AT5G11860.4 @ TAIR |
+3 | 2e-103 | 315 | 168/212 (79%) | Symbols: | SCP1-like small phosphatase 5 | chr5:3822024-3823395 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi4g02010.1.p | +3 | 0.0 | 593 | 326/411 (79%) | pacid=32785818 transcript=Bradi4g02010.1 locus=Bradi4g02010 ID=Bradi4g02010.1.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 (1847 bp)
>BART1_0-u41201.007 1847 150831_barley_pseudomolecules GCCGGGCCCGTCCACCCCGTCTCGCCGCCCGCCAGCTCGTCCCCGGCCTCCAGCTCGCCT CCGCCCAGGTCTGTACTCTGAGGGTTATTTGCGTTGAAAGCTCTACGTGCCACTTTGACG GAGTTTGTGCAATTACCCTGAACTGACTTGGCGGAAGTGTGCTGTGTGGTCTGGTGTTCC TTTTCTCATATACGAGCCAACTGCAGGCAAGAAGTCTTCTTGATTGAAGGATGCCGACAA GAAAAAAAGGACCTGCAAGAAATGCAACTGTCGAGCATGTTAATACGAAAACTAGCAGGC AACCTAGAAGACCCACTCAGACCGCAGCTGCTGATAAGAAAGTCAATGATCTAATTACTT CTTCTTCCAAAAAGCAGAAACCTGCCGGAGACCCTCTGAAGAAAAACCAAGTTCTAAGCG GTGGAAGAAAATTAACATCTCTATATGATTCTGAAACTGAAAATGAAGTGGCTGATGTGC CAAGTAGTAGTATGCTTGATCACAAGTCTCACGGAGATGATGAAGAGCCATGTGAGAACA TATTTTCTCAACCATTCCACCATCATAATGAAGACGACAGTGATGGCTTGAGCAAAGTTC CTGTGCAATCAACATGTGGAAATACGAAGCGTGCAAACGATGAATACAGTGAATTGGATG AGTGCGCTGATCCTGATGAGGCTGAGGAGCTTGATGAGTTTGACCCTTATAGCTTTATAA AGGATTTGCCTGAGTTATCTATGGTTGTACCCAAGTTTCGACCCGTTCTTCTTCCAAAGC AAACTCGGAGCTGCCCTAGAACCACCCTTGTTCTTGATCTGGATGAGACACTGGTGCATT CTACTCTTGAGCCCTGTGAAGATTCTGATTTCACTTTCCCAGTTCGTTTTAATCTCAGAG ATCACACAATCTATGTACGGTGTCGTCCATATCTGAAAGACTTCCTGGAGAGAGTAGCCA GCATGTTTGAGATAATCATCTTCACGGCTAGTCAAAGTATCTATGCAGAACAACTGCTTA ATGTTCTTGATCCGAAAAGAAGGTTGTTCCGTCATCGAGTTTATCGCGAGTCTTGCGTCT ACGTGGAGGGCAACTACTTAAAGGATCTATCAGTTCTCGGACGTGACTTGTCTCGTGTTG TCATAGTTGACAATTCTCCACAGGCCTTTGGGTTCCAGTTGGACAATGGCATACCGATCG AGAGTTGGTTCGACGACCCAAACGACAAGGAGCTCCTAGCACTGCTACCGTTCCTGGAAA GCCTGGTTGGTGTGGAAGATGTCCGGCCATTCATCGCAACTAAGTTCAACCTCCGCCAGA AGGTGGCCAGCGCGACTTCCCTTGCGATGCACTTCTTTCCTAATGGGGAGTGTGCCAGCT GAAGGGCTCCCGGAGAAAACAGGCAATCAAGTGCTCGAAAGGATACCTGAAAATTTAGAA TCCTTTGTTGTTCTGGTACAATCATGTGTCATTTAATTTCGAACCGCCAGACGGACAGAG TCATAATTTGGGCTGTTGTAAGTTTCTAAAAACCGGTAAACCTTAGGGAACCTTGTACAA GCAGTAGCCAGGACCCAGAGGGGTCACTGCCCAGCATTGTAATAGACCAGCGGATATTTG TCGGAATTTGCTGCCCAGCATTGTAATAGGCCAGCAGATATTTGTCGGAATTTACTGCTA AGCACTGTAATAGCCCAGCGGATATTTGCCAGAATTTGTTGCGTTCAACGCAGTTATGTC GCAGTCTGTAGTTGTCAAGTCTAGTAAAGAAGTGGGCCAGTGAGGGATTATGCCCATTTG AGCCACTATATCCCCATTTGTGATCTAGCTTTCGTTTGTGTTTGAAC
Protein Sequence (383 aa)
>BART1_0-u41201.007 383 150831_barley_pseudomolecules MPTRKKGPARNATVEHVNTKTSRQPRRPTQTAAADKKVNDLITSSSKKQKPAGDPLKKNQ VLSGGRKLTSLYDSETENEVADVPSSSMLDHKSHGDDEEPCENIFSQPFHHHNEDDSDGL SKVPVQSTCGNTKRANDEYSELDECADPDEAEELDEFDPYSFIKDLPELSMVVPKFRPVL LPKQTRSCPRTTLVLDLDETLVHSTLEPCEDSDFTFPVRFNLRDHTIYVRCRPYLKDFLE RVASMFEIIIFTASQSIYAEQLLNVLDPKRRLFRHRVYRESCVYVEGNYLKDLSVLGRDL SRVVIVDNSPQAFGFQLDNGIPIESWFDDPNDKELLALLPFLESLVGVEDVRPFIATKFN LRQKVASATSLAMHFFPNGECAS