- Transcript BART1_0-u05011.001
- Transcript IDBART1_0-u05011.001
- Gene IDBART1_0-u05011
Barley RTD
Exon Structure of BART1_0-u05011.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 500894741 | 500893790 | - |
| chr1H | 2 | 500896865 | 500896331 | - |
| chr1H | 3 | 500897875 | 500896974 | - |
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 | 3.43892 | 5.08579 | 5.55539 |
| morex | ETI | 0.350142 | 0.644474 | 0.583923 |
| morex | LEA | 3.69661 | 0.826872 | 0.654205 |
| morex | EPI | 0.390217 | 0.143105 | 0.204271 |
| morex | ROO | 2.25935 | 2.86454 | 2.59803 |
| morex | ROO2 | 2.55703 | 2.06425 | 2.28703 |
| morex | NOD | 7.55839 | 1.0551 | 2.00384 |
| morex | RAC | 5.38424 | 8.70871 | 9.7496 |
| morex | INF1 | 10.5444 | 10.1355 | 9.06276 |
| morex | INF2 | 15.8147 | 13.2039 | 14.2478 |
| morex | CAR5 | 10.2112 | 9.88055 | 11.1764 |
| morex | CAR15 | 0.495277 | 0.305524 | 0.488185 |
| morex | LEM | 1.39297 | 1.23045 | 2.56324 |
| morex | LOD | 3.21107 | 3.4439 | 3.57184 |
| morex | PAL | 2.73017 | 3.23619 | 3.40969 |
| morex | SEN | 0.10956 | 0.180603 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g37900.1 | +2 | 3e-86 | 274 | 159/217 (73%) | protein|zinc finger, C3HC4 type domain containing protein, expressed |
| TAIR PP10 | AT5G05830 @ ARAPORT AT5G05830.1 @ TAIR |
+2 | 7e-44 | 157 | 89/159 (56%) | Symbols: | RING/FYVE/PHD zinc finger superfamily protein | chr5:1755910-1756825 FORWARD LENGTH=204 |
| BRACH PP3 | Bradi2g23610.2.p | +2 | 3e-92 | 290 | 177/241 (73%) | pacid=32776793 transcript=Bradi2g23610.2 locus=Bradi2g23610 ID=Bradi2g23610.2.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 (2389 bp)
>BART1_0-u05011.001 2389 150831_barley_pseudomolecules ATGAAATTAATATGCATGGCTATGTTGATTTTTTTTGCATCAATGCCATCGGCGCCATAT TCGGTTGGAATTGTATACAACGATTAATGGGAAGAAGGCCTCATTTGGTTTACAGGATTT TGGGATGATACTTAAATCATTTCTTTCCGTGAGATTTGCCCCCCATGTGTAGCATTTCTT CCACATGAATAAATATACTAAATTTCTTAGCATTGTGCTCCTCGAATCGCAATTCACCAT CGAAAACTAACCAACATAATTTTTAGTGGTAAGCAGAAAAAAAAAGTTGTAAGGATTGGA GTGGATGGGCATCATAGTCCTTTACCTTTTTACACAATCACAATAATCTAGTTCTAAAAC GTGGAAATAAAAAGTTTCCAAGAAAAGAAAAAATACTGCTCACCAGTACACCACAGATTC AGAGGAGGGCAATAATCTTGAGCTGCACTCTTCTCCACGAGACCCATCAGCATCACCCCC GCCCCCATGGCCATAAGACGACGGTGAGCTGATAGCGCCAGACGGACCAAACCCCTCCTC GCCTCCTCCTGTTCCTCCCCCGACAAGCACAGAACTCGTCTTTTCTCCTTTCTCTTTTCC CCCTCGCCTCACTCACTCACTGCCAGTACAGTACAATCCCTCCGCTCTTTATTCCCCTCG CCTCCGACTCGCCCTTGTCCCCTTGCGTGTCCGTCCCGCGGTCATGGATCAAGAAACCTC ACGAGAACCCCGCCGCTCCAGCCGTATGTCGCCGCATTAGTCGGGGGGAGGGCCCAGTCC CCGCCGGATCGCTCCTCGCGATCGCATTGCATGCGCGCCTCTTGATCTTGTCTTTATCCT GGACACGGATTGGTTTCCGTCGCCGGATTCGGAGCGGCGGCATTCTGGTTGGTTGGTACG GAGCCGCGTCTGAGGAGGAGGAGCGATGGTCGGCGACGGCGCGCGGTCGGCAGTCGCCGC CGGGGTCCAAGACATCGAGCTCGGCGAGCGGCGCCGCGGTGATGAGTTCCTGGACGACGA CGGCGAGGAGGAGGAGGAGGAGGGCAGCCAGTACTTCACGGACGCGGAGGACCGGTCGTG GCCCTCGCACTCGCGCCACGAGTCCGCCGCCTTCGAGGACTGCATCTCGCGGTGCTCCTG CGGCGGCGCCGACAGCGACGCGGACATCGAGGCCGGCGGCGGGCACTTCAGGAAGTCGTC CTGCGTGTCCGAGTGCTCGCTGGACGACGTCGACCTGGAGGCCGGGCTGGCCGAGAGCGC CAAGGGCAGCCCCGACCCCGAGAAGGCCGAGAGGAACTGCCGCATTTGCCACCTCGGCCT CGAGAGCGCGGCGGCCGAGTCCGGCGCCGGCATCACGCTCGGCTGCTCCTGCAAGGGCGA CCTCTCCTACTCCCACAAGCAGTGCGCCGAGACCTGGTTCAAGATCAGAGGCAACAAGAC CTGTGAAATTTGCAGCTCAGTCGCATGCAATGTGGTAGTTTTAGGCGATCCAGAGTTCAC CGAGCAGTCGAATGAATCAACTACCGCAGCAGCCGGGCATACATTTCCAACCGAAACTAG GAGGTTTTGGCAAGGGCACCGGTTCCTCAACTTCCTTCTAGCATGCATGGTTTTCGCCTT CGTCATCTCATGGCTCTTCCACTTCAATGTCCCGGGGTGAGTTCTCGCAGCCAATGGCCC CTCAATAAAAGCCACAGGGCCATTGAGGCAAACATGTGGGTCAGATTCAGCAAATCTGGA GAGCGGGATGAGGTGAAGTTATTAAGCAGTGAAGAGGTACAAATGAGTGTGTATGTGGGG CGCGACGGCCTTAAGTTTCTCTGGATCAGGATCCGGTACGAAAGAAGCCCTGATGAAGAT CTGCCGCCGTTCATGAATTTGGGTGAAGGTAGCAAACAGCGAAGAAGAGAAGGTGTGTTG TTCCGGGATTGTTTTAGGTTTGAAGGACATGTTTTATGTTAGTGTCGTCGTTTCCTTTAG CTTGGCCGTTTTCGCCTTGTGAGTTGGTGTGATATGTGCAGATTTTGTTTTATGCCTTCC ATCCAGTGTTTATAATCCTGATAAACAGGATGAGGTGGTAGCTGTGCTTAGCAGGAAGAG AAACCCCACTGCCAGCTCAGGTTCCGAATAATGAAGAGAAAATGTTTTTGAGACGCTTGA GCTCTTGTGTCTGCACATGGAAACGTTGCTGGGGAAACTTGTGTTTGTTTCTTCAACGCT TGTGCTATATGTTTGGCTGCTGCATTTACTTGCTTGCAAGTGCTGGACCAATATGCATGG GTGACCACACTAGCACAATTTGGACGGTGCAAATGCAGGCAGGTGCAGTCACGGTACGTA GAGCGTGCTGTGGTGCGAGCAGGGCCAGCTATAAATGCAACGAATCGGT
Protein Sequence (244 aa)
>BART1_0-u05011.001 244 150831_barley_pseudomolecules MVGDGARSAVAAGVQDIELGERRRGDEFLDDDGEEEEEEGSQYFTDAEDRSWPSHSRHES AAFEDCISRCSCGGADSDADIEAGGGHFRKSSCVSECSLDDVDLEAGLAESAKGSPDPEK AERNCRICHLGLESAAAESGAGITLGCSCKGDLSYSHKQCAETWFKIRGNKTCEICSSVA CNVVVLGDPEFTEQSNESTTAAAGHTFPTETRRFWQGHRFLNFLLACMVFAFVISWLFHF NVPG