- Transcript BART1_0-u05011.002
- Transcript IDBART1_0-u05011.002
- Gene IDBART1_0-u05011
Barley RTD
Exon Structure of BART1_0-u05011.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 500894741 | 500893860 | - |
| chr1H | 2 | 500896865 | 500896331 | - |
| chr1H | 3 | 500897875 | 500896981 | - |
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 | 3.38375 | 1.57966 | 2.13778 |
| morex | ETI | 0.296609 | 0.290699 | 0.459803 |
| morex | LEA | 1.09697 | 0 | 0.394431 |
| morex | EPI | 0.120137 | 0 | 0.165086 |
| morex | ROO | 0.582946 | 0.405998 | 0.172663 |
| morex | ROO2 | 1.08351 | 0.50055 | 0.785584 |
| morex | NOD | 1.70173 | 0.712299 | 0.452007 |
| morex | RAC | 2.78629 | 3.46245 | 4.72003 |
| morex | INF1 | 1.83714 | 2.36712 | 2.47021 |
| morex | INF2 | 3.22636 | 4.50262 | 5.20089 |
| morex | CAR5 | 5.30752 | 4.90975 | 4.58744 |
| morex | CAR15 | 0.211741 | 0.237927 | 0.418932 |
| morex | LEM | 1.21374 | 0.495916 | 2.33064 |
| morex | LOD | 1.99846 | 0.588586 | 1.82793 |
| morex | PAL | 1.26337 | 2.65629 | 1.84623 |
| morex | SEN | 0 | 0 | 0.0913753 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g37900.1 | +1 | 3e-86 | 274 | 159/217 (73%) | protein|zinc finger, C3HC4 type domain containing protein, expressed |
| TAIR PP10 | AT5G05830 @ ARAPORT AT5G05830.1 @ TAIR |
+1 | 8e-44 | 157 | 90/160 (56%) | Symbols: | RING/FYVE/PHD zinc finger superfamily protein | chr5:1755910-1756825 FORWARD LENGTH=204 |
| BRACH PP3 | Bradi2g23610.2.p | +1 | 2e-91 | 287 | 177/240 (74%) | 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 (2312 bp)
>BART1_0-u05011.002 2312 150831_barley_pseudomolecules ATGAAATTAATATGCATGGCTATGTTGATTTTTTTTGCATCAATGCCATCGGCGCCATAT TCGGTTGGAATTGTATACAACGATTAATGGGAAGAAGGCCTCATTTGGTTTACAGGATTT TGGGATGATACTTAAATCATTTCTTTCCGTGAGATTTGCCCCCCATGTGTAGCATTTCTT CCACATGAATAAATATACTAAATTTCTTAGCATTGTGCTCCTCGAATCGCAATTCACCAT CGAAAACTAACCAACATAATTTTTAGTGGTAAGCAGAAAAAAAAAGTTGTAAGGATTGGA GTGGATGGGCATCATAGTCCTTTACCTTTTTACACAATCACAATAATCTAGTTCTAAAAC GTGGAAATAAAAAGTTTCCAAGAAAAGAAAAAATACTGCTCACCAGTACACCACAGATTC AGAGGAGGGCAATAATCTTGAGCTGCACTCTTCTCCACGAGACCCATCAGCATCACCCCC GCCCCCATGGCCATAAGACGACGGTGAGCTGATAGCGCCAGACGGACCAAACCCCTCCTC GCCTCCTCCTGTTCCTCCCCCGACAAGCACAGAACTCGTCTTTTCTCCTTTCTCTTTTCC CCCTCGCCTCACTCACTCACTGCCAGTACAGTACAATCCCTCCGCTCTTTATTCCCCTCG CCTCCGACTCGCCCTTGTCCCCTTGCGTGTCCGTCCCGCGGTCATGGATCAAGAAACCTC ACGAGAACCCCGCCGCTCCAGCCGTATGTCGCCGCATTAGTCGGGGGGAGGGCCCAGTCC CCGCCGGATCGCTCCTCGCGATCGCATTGCATGCGCGCCTCTTGATCTTGTCTTTATCCT GGACACGGATTGGTTTCCGTCGCCGGATTCGGAGCGGCGGCATTCTGGTTGGTTGGCCGC GTCTGAGGAGGAGGAGCGATGGTCGGCGACGGCGCGCGGTCGGCAGTCGCCGCCGGGGTC CAAGACATCGAGCTCGGCGAGCGGCGCCGCGGTGATGAGTTCCTGGACGACGACGGCGAG GAGGAGGAGGAGGAGGGCAGCCAGTACTTCACGGACGCGGAGGACCGGTCGTGGCCCTCG CACTCGCGCCACGAGTCCGCCGCCTTCGAGGACTGCATCTCGCGGTGCTCCTGCGGCGGC GCCGACAGCGACGCGGACATCGAGGCCGGCGGCGGGCACTTCAGGAAGTCGTCCTGCGTG TCCGAGTGCTCGCTGGACGACGTCGACCTGGAGGCCGGGCTGGCCGAGAGCGCCAAGGGC AGCCCCGACCCCGAGAAGGCCGAGAGGAACTGCCGCATTTGCCACCTCGGCCTCGAGAGC GCGGCGGCCGAGTCCGGCGCCGGCATCACGCTCGGCTGCTCCTGCAAGGGCGACCTCTCC TACTCCCACAAGCAGTGCGCCGAGACCTGGTTCAAGATCAGAGGCAACAAGACCTGTGAA ATTTGCAGCTCAGTCGCATGCAATGTGGTAGTTTTAGGCGATCCAGAGTTCACCGAGCAG TCGAATGAATCAACTACCGCAGCAGCCGGGCATACATTTCCAACCGAAACTAGGAGGTTT TGGCAAGGGCACCGGTTCCTCAACTTCCTTCTAGCATGCATGGTTTTCGCCTTCGTCATC TCATGGCTCTTCCACTTCAATGTCCCGGGGTGAGTTCTCGCAGCCAATGGCCCCTCAATA AAAGCCACAGGGCCATTGAGGCAAACATGTGGGTCAGATTCAGCAAATCTGGAGAGCGGG ATGAGGTGAAGTTATTAAGCAGTGAAGAGGTACAAATGAGTGTGTATGTGGGGCGCGACG GCCTTAAGTTTCTCTGGATCAGGATCCGGTACGAAAGAAGCCCTGATGAAGATCTGCCGC CGTTCATGAATTTGGGTGAAGGTAGCAAACAGCGAAGAAGAGAAGGTGTGTTGTTCCGGG ATTGTTTTAGGTTTGAAGGACATGTTTTATGTTAGTGTCGTCGTTTCCTTTAGCTTGGCC GTTTTCGCCTTGTGAGTTGGTGTGATATGTGCAGATTTTGTTTTATGCCTTCCATCCAGT GTTTATAATCCTGATAAACAGGATGAGGTGGTAGCTGTGCTTAGCAGGAAGAGAAACCCC ACTGCCAGCTCAGGTTCCGAATAATGAAGAGAAAATGTTTTTGAGACGCTTGAGCTCTTG TGTCTGCACATGGAAACGTTGCTGGGGAAACTTGTGTTTGTTTCTTCAACGCTTGTGCTA TATGTTTGGCTGCTGCATTTACTTGCTTGCAAGTGCTGGACCAATATGCATGGGTGACCA CACTAGCACAATTTGGACGGTGCAAATGCAGG
Protein Sequence (244 aa)
>BART1_0-u05011.002 244 150831_barley_pseudomolecules MVGDGARSAVAAGVQDIELGERRRGDEFLDDDGEEEEEEGSQYFTDAEDRSWPSHSRHES AAFEDCISRCSCGGADSDADIEAGGGHFRKSSCVSECSLDDVDLEAGLAESAKGSPDPEK AERNCRICHLGLESAAAESGAGITLGCSCKGDLSYSHKQCAETWFKIRGNKTCEICSSVA CNVVVLGDPEFTEQSNESTTAAAGHTFPTETRRFWQGHRFLNFLLACMVFAFVISWLFHF NVPG