- Transcript BART1_0-u44413.012
- Transcript IDBART1_0-u44413.012
- Gene IDBART1_0-u44413
Barley RTD
Exon Structure of BART1_0-u44413.012
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 210492591 | 210492535 | - |
| chr6H | 2 | 210493332 | 210493241 | - |
| chr6H | 3 | 210493711 | 210493508 | - |
| chr6H | 4 | 210494944 | 210494825 | - |
| chr6H | 5 | 210495512 | 210495417 | - |
| chr6H | 6 | 210495694 | 210495591 | - |
| chr6H | 7 | 210497614 | 210497329 | - |
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 | 8.77085 | 47.7734 | 44.581 |
| morex | ETI | 6.62461 | 8.94312 | 10.7777 |
| morex | LEA | 27.274 | 15.9817 | 7.29053 |
| morex | EPI | 3.01975 | 1.58714 | 0.976481 |
| morex | ROO | 4.23804 | 23.9691 | 11.3774 |
| morex | ROO2 | 18.3791 | 6.65795 | 14.1848 |
| morex | NOD | 24.734 | 7.18075 | 7.08636 |
| morex | RAC | 21.6097 | 22.0204 | 25.7661 |
| morex | INF1 | 66.185 | 60.5779 | 48.068 |
| morex | INF2 | 58.4072 | 61.2289 | 75.6407 |
| morex | CAR5 | 70.5494 | 75.9479 | 76.3943 |
| morex | CAR15 | 19.169 | 13.9716 | 16.6267 |
| morex | LEM | 11.0291 | 10.8088 | 9.9334 |
| morex | LOD | 25.9346 | 8.21638 | 18.8 |
| morex | PAL | 20.6303 | 20.2944 | 18.4111 |
| morex | SEN | 11.7069 | 11.1682 | 2.78334 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g13110.1 | +1 | 3e-132 | 387 | 208/255 (82%) | protein|serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B, putative, expressed |
| TAIR PP10 | AT1G17720 @ ARAPORT AT1G17720.1 @ TAIR |
+1 | 5e-111 | 331 | 168/243 (69%) | Symbols: ATB BETA | Protein phosphatase 2A, regulatory subunit PR55 | chr1:6093949-6098065 REVERSE LENGTH=501 |
| BRACH PP3 | Bradi3g08400.3.p | +1 | 5e-156 | 447 | 227/251 (90%) | pacid=32816172 transcript=Bradi3g08400.3 locus=Bradi3g08400 ID=Bradi3g08400.3.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 (959 bp)
>BART1_0-u44413.012 959 150831_barley_pseudomolecules CTGGAACTCGCTCTCCACATCATTTGGCTGCAGCACCTCACCTCACCTCGTCTCCACCCC TCGATCTCCGTCGCCGTCTCCCCCCATTCTTCCAGGACCATCCCCCCCTCCCGATCTACC CCGCCGACGCGGTCGAGATCCTCGTTCCATGGTGTCGTGACGGCGGCAGCGCTCATGGAC CCCAAGTCCCCCGACGACCGCCCGGAGGCGGCGGCACCGCAGCCGCTAGAGTGGCGGTTC GCGCAGGTCTTCGGCGAGCGCGGTGCTGGCGAGGACGTGCAGGAAGTTGACATCATCTCT GCGATCGAGTTTGACAAATCTGGTGATCATCTTGCCACTGGAGATAGGGGTGGACGTGTA GTTTTGTTTGAAAGAACTGATGCCAGGGGTAATGCCAGTCGGACAGAGCTTGAGAGACAA GATTATTCGGTGCCCAGGCATCCTGAGTTCCGCTATAAAACTGAATTTCAGAGTCATGAA CCTGAGTTCGATTACCTAAAGAGTTTGGAAATAGAGGAGAAAATCAACAAGATCAAGTGG GGCCAAATAGCCAACAATGCACTCTTTATCTTGTCTACAAATGACAAAACAATCAAGTAC TGGAAGGTGCAAGACAAAAAAGTGAAACGAATTTCAGTAATGAATTTGGATACTTCCCAG AGTGCAGACAATGGGACAACTTCTAGTTCGAGTACCAGTAGCTCTAGAGGCCTTCCTAAT GGAGGATCCTCAGAAAAGTCATACAATTATGCAAACAACGATCTGCCATTCCCTCCTGGG GGATATGCATCATTGCGTTTGCCTGTGGTAGTTACAGGCCAAGAGTTAAACCCTGTTGCT AGATGCCGGCGTGTATATGCACACGCCCATGATTACCATATCAATTCCATTTCAAATAAT AGGGGTTCCTCTTTTTGTAGAGGCCTAACGATTCAATCTAAGTAAGAAATCATGGATAT
Protein Sequence (314 aa)
>BART1_0-u44413.012 314 150831_barley_pseudomolecules LELALHIIWLQHLTSPRLHPSISVAVSPHSSRTIPPSRSTPPTRSRSSFHGVVTAAALMD PKSPDDRPEAAAPQPLEWRFAQVFGERGAGEDVQEVDIISAIEFDKSGDHLATGDRGGRV VLFERTDARGNASRTELERQDYSVPRHPEFRYKTEFQSHEPEFDYLKSLEIEEKINKIKW GQIANNALFILSTNDKTIKYWKVQDKKVKRISVMNLDTSQSADNGTTSSSSTSSSRGLPN GGSSEKSYNYANNDLPFPPGGYASLRLPVVVTGQELNPVARCRRVYAHAHDYHINSISNN RGSSFCRGLTIQSK