- Transcript BART1_0-u05011.003
- Transcript IDBART1_0-u05011.003
- Gene IDBART1_0-u05011
Barley RTD
Exon Structure of BART1_0-u05011.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 500894741 | 500893937 | - |
| chr1H | 2 | 500896865 | 500896331 | - |
| chr1H | 3 | 500897411 | 500896989 | - |
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 | 0.00000759688 | 0.00000236009 | 2.72282 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0.204686 | 0 |
| morex | ROO | 0.0305082 | 0 | 0 |
| morex | ROO2 | 0.474144 | 0.590718 | 0 |
| morex | NOD | 0.1968 | 0.613394 | 0 |
| morex | RAC | 0.477036 | 0 | 2.10895 |
| morex | INF1 | 0.588763 | 0.483804 | 0 |
| morex | INF2 | 1.10966 | 0.46557 | 1.38122 |
| morex | CAR5 | 0 | 0.55543 | 1.27889 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.252012 | 0.48774 | 0.222165 |
| morex | LOD | 0 | 0.0232248 | 0.560582 |
| morex | PAL | 1.06754 | 0 | 0.241445 |
| morex | SEN | 0 | 0.544846 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g37900.1 | +3 | 2e-88 | 275 | 159/217 (73%) | protein|zinc finger, C3HC4 type domain containing protein, expressed |
| TAIR PP10 | AT5G05830 @ ARAPORT AT5G05830.1 @ TAIR |
+3 | 7e-45 | 158 | 89/159 (56%) | Symbols: | RING/FYVE/PHD zinc finger superfamily protein | chr5:1755910-1756825 FORWARD LENGTH=204 |
| BRACH PP3 | Bradi2g23610.2.p | +3 | 5e-94 | 289 | 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 (1763 bp)
>BART1_0-u05011.003 1763 150831_barley_pseudomolecules CATCAGCATCACCCCCGCCCCCATGGCCATAAGACGACGGTGAGCTGATAGCGCCAGACG GACCAAACCCCTCCTCGCCTCCTCCTGTTCCTCCCCCGACAAGCACAGAACTCGTCTTTT CTCCTTTCTCTTTTCCCCCTCGCCTCACTCACTCACTGCCAGTACAGTACAATCCCTCCG CTCTTTATTCCCCTCGCCTCCGACTCGCCCTTGTCCCCTTGCGTGTCCGTCCCGCGGTCA TGGATCAAGAAACCTCACGAGAACCCCGCCGCTCCAGCCGTATGTCGCCGCATTAGTCGG GGGGAGGGCCCAGTCCCCGCCGGATCGCTCCTCGCGATCGCATTGCATGCGCGCCTCTTG ATCTTGTCTTTATCCTGGACACGGATTGGTTTCCGTCGCCGGATTCGGAGCGGCGGCATT CTGGCCGCGTCTGAGGAGGAGGAGCGATGGTCGGCGACGGCGCGCGGTCGGCAGTCGCCG CCGGGGTCCAAGACATCGAGCTCGGCGAGCGGCGCCGCGGTGATGAGTTCCTGGACGACG ACGGCGAGGAGGAGGAGGAGGAGGGCAGCCAGTACTTCACGGACGCGGAGGACCGGTCGT GGCCCTCGCACTCGCGCCACGAGTCCGCCGCCTTCGAGGACTGCATCTCGCGGTGCTCCT GCGGCGGCGCCGACAGCGACGCGGACATCGAGGCCGGCGGCGGGCACTTCAGGAAGTCGT CCTGCGTGTCCGAGTGCTCGCTGGACGACGTCGACCTGGAGGCCGGGCTGGCCGAGAGCG CCAAGGGCAGCCCCGACCCCGAGAAGGCCGAGAGGAACTGCCGCATTTGCCACCTCGGCC TCGAGAGCGCGGCGGCCGAGTCCGGCGCCGGCATCACGCTCGGCTGCTCCTGCAAGGGCG ACCTCTCCTACTCCCACAAGCAGTGCGCCGAGACCTGGTTCAAGATCAGAGGCAACAAGA CCTGTGAAATTTGCAGCTCAGTCGCATGCAATGTGGTAGTTTTAGGCGATCCAGAGTTCA CCGAGCAGTCGAATGAATCAACTACCGCAGCAGCCGGGCATACATTTCCAACCGAAACTA GGAGGTTTTGGCAAGGGCACCGGTTCCTCAACTTCCTTCTAGCATGCATGGTTTTCGCCT TCGTCATCTCATGGCTCTTCCACTTCAATGTCCCGGGGTGAGTTCTCGCAGCCAATGGCC CCTCAATAAAAGCCACAGGGCCATTGAGGCAAACATGTGGGTCAGATTCAGCAAATCTGG AGAGCGGGATGAGGTGAAGTTATTAAGCAGTGAAGAGGTACAAATGAGTGTGTATGTGGG GCGCGACGGCCTTAAGTTTCTCTGGATCAGGATCCGGTACGAAAGAAGCCCTGATGAAGA TCTGCCGCCGTTCATGAATTTGGGTGAAGGTAGCAAACAGCGAAGAAGAGAAGGTGTGTT GTTCCGGGATTGTTTTAGGTTTGAAGGACATGTTTTATGTTAGTGTCGTCGTTTCCTTTA GCTTGGCCGTTTTCGCCTTGTGAGTTGGTGTGATATGTGCAGATTTTGTTTTATGCCTTC CATCCAGTGTTTATAATCCTGATAAACAGGATGAGGTGGTAGCTGTGCTTAGCAGGAAGA GAAACCCCACTGCCAGCTCAGGTTCCGAATAATGAAGAGAAAATGTTTTTGAGACGCTTG AGCTCTTGTGTCTGCACATGGAAACGTTGCTGGGGAAACTTGTGTTTGTTTCTTCAACGC TTGTGCTATATGTTTGGCTGCTG
Protein Sequence (244 aa)
>BART1_0-u05011.003 244 150831_barley_pseudomolecules MVGDGARSAVAAGVQDIELGERRRGDEFLDDDGEEEEEEGSQYFTDAEDRSWPSHSRHES AAFEDCISRCSCGGADSDADIEAGGGHFRKSSCVSECSLDDVDLEAGLAESAKGSPDPEK AERNCRICHLGLESAAAESGAGITLGCSCKGDLSYSHKQCAETWFKIRGNKTCEICSSVA CNVVVLGDPEFTEQSNESTTAAAGHTFPTETRRFWQGHRFLNFLLACMVFAFVISWLFHF NVPG