- Transcript BART1_0-u05013.001
- Transcript IDBART1_0-u05013.001
- Gene IDBART1_0-u05013
Barley RTD
Exon Structure of BART1_0-u05013.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 500969286 | 500968335 | - |
| chr1H | 2 | 500971410 | 500970876 | - |
| chr1H | 3 | 500972545 | 500971519 | - |
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 | 0.0000549483 | 0.00000529934 | 0.0000609852 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0.00000657627 | 0.0000000266928 | 0.00000000161974 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0.0000167556 | 0.000000345367 | 0.0000414091 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.00000669153 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0.000118182 | 0.000000163547 | 0.0000383856 |
| morex | INF2 | 0.00000000175225 | 0.00000000130132 | 0.0000000477814 |
| morex | CAR5 | 0.00000000150704 | 0.0000000213354 | 0.00000218021 |
| morex | CAR15 | 0.00000908774 | 0.00000748825 | 0.0000472764 |
| morex | LEM | 0.428663 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g37900.1 | +1 | 7e-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 | 89/159 (56%) | Symbols: | RING/FYVE/PHD zinc finger superfamily protein | chr5:1755910-1756825 FORWARD LENGTH=204 |
| BRACH PP3 | Bradi2g23610.2.p | +1 | 7e-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 (2514 bp)
>BART1_0-u05013.001 2514 150831_barley_pseudomolecules GACCATTATAAGATATGAAATTAACATGCATGGCTATGTTGATTTCTTTTGCATCGATGC CTTCAAGAAGAGGCATAAATTGCATAATACAAAACAAAGACAACATCGTTGGACCATTAT AAGATATGAAATTAATATGCATGGCTATGTTGATTTTTTTTGCATCAATGCCATCGGCGC CATATTCGGTTGGAATTGTATACAACGATTAATGGGAAGAAGGCCTCATTTGGTTTACAG GATTTTGGGATGATACTTAAATCATTTCTTTCCGTGAGATTTGCCCCCCATGTGTAGCAT TTCTTCCACATGAATAAATATACTAAATTTCTTAGCATTGTGCTCCTCGAATCGCAATTC ACCATCGAAAACTAACCAACATAATTTTTAGTGGTAAGCAGAAAAAAAAAGTTGTAAGGA TTGGAGTGGATGGGCATCATAGTCCTTTACCTTTTTACACAATCACAATAATCTAGTTCT AAAACGTGGAAATAAAAAGTTTCCAAGAAAAGAAAAAATACTGCTCACCAGTACACCACA GATTCAGAGGAGGGCAATAATCTTGAGCTGCACTCTTCTCCACGAGACCCATCAGCATCA CCCCCGCCCCCATGGCCATAAGACGACGGTGAGCTGATAGCGCCAGACGGACCAAACCCC TCCTCGCCTCCTCCTGTTCCTCCCCCGACAAGCACAGAACTCGTCTTTTCTCCTTTCTCT TTTCCCCCTCGCCTCACTCACTCACTGCCAGTACAGTACAATCCCTCCGCTCTTTATTCC CCTCGCCTCCGACTCGCCCTTGTCCCCTTGCGTGTCCGTCCCGCGGTCATGGATCAAGAA ACCTCACGAGAACCCCGCCGCTCCAGCCGTATGTCGCCGCATTAGTCGGGGGGAGGGCCC AGTCCCCGCCGGATCGCTCCTCGCGATCGCATTGCATGCGCGCCTCTTGATCTTGTCTTT ATCCTGGACACGGATTGGTTTCCGTCGCCGGATTCGGAGCGGCGGCATTCTGGTTGGTTG GTACGGAGCCGCGTCTGAGGAGGAGGAGCGATGGTCGGCGACGGCGCGCGGTCGGCAGTC GCCGCCGGGGTCCAAGACATCGAGCTCGGCGAGCGGCGCCGCGGTGATGAGTTCCTGGAC GACGACGGCGAGGAGGAGGAGGAGGAGGGCAGCCAGTACTTCACGGACGCGGAGGACCGG TCGTGGCCCTCGCACTCGCGCCACGAGTCCGCCGCCTTCGAGGACTGCATCTCGCGGTGC TCCTGCGGCGGCGCCGACAGCGACGCGGACATCGAGGCCGGCGGCGGGCACTTCAGGAAG TCGTCCTGCGTGTCCGAGTGCTCGCTGGACGACGTCGACCTGGAGGCCGGGCTGGCCGAG AGCGCCAAGGGCAGCCCCGACCCCGAGAAGGCCGAGAGGAACTGCCGCATTTGCCACCTC GGCCTCGAGAGCGCGGCGGCCGAGTCCGGCGCCGGCATCACGCTCGGCTGCTCCTGCAAG GGCGACCTCTCCTACTCCCACAAGCAGTGCGCCGAGACCTGGTTCAAGATCAGAGGCAAC AAGACCTGTGAAATTTGCAGCTCAGTCGCATGCAATGTGGTAGTTTTAGGCGATCCAGAG TTCACCGAGCAGTCGAATGAATCAACTACCGCAGCAGCCGGGCATACATTTCCAACCGAA ACTAGGAGGTTTTGGCAAGGGCACCGGTTCCTCAACTTCCTTCTAGCATGCATGGTTTTC GCCTTCGTCATCTCATGGCTCTTCCACTTCAATGTCCCGGGGTGAGTTCTCGCAGCCAAT GGCCCCTCAATAAAAGCCACAGGGCCATTGAGGCAAACATGTGGGTCAGATTCAGCAAAT CTGGAGAGCGGGATGAGGTGAAGTTATTAAGCAGTGAAGAGGTACAAATGAGTGTGTATG TGGGGCGCGACGGCCTTAAGTTTCTCTGGATCAGGATCCGGTACGAAAGAAGCCCTGATG AAGATCTGCCGCCGTTCATGAATTTGGGTGAAGGTAGCAAACAGCGAAGAAGAGAAGGTG TGTTGTTCCGGGATTGTTTTAGGTTTGAAGGACATGTTTTATGTTAGTGTCGTCGTTTCC TTTAGCTTGGCCGTTTTCGCCTTGTGAGTTGGTGTGATATGTGCAGATTTTGTTTTATGC CTTCCATCCAGTGTTTATAATCCTGATAAACAGGATGAGGTGGTAGCTGTGCTTAGCAGG AAGAGAAACCCCACTGCCAGCTCAGGTTCCGAATAATGAAGAGAAAATGTTTTTGAGACG CTTGAGCTCTTGTGTCTGCACATGGAAACGTTGCTGGGGAAACTTGTGTTTGTTTCTTCA ACGCTTGTGCTATATGTTTGGCTGCTGCATTTACTTGCTTGCAAGTGCTGGACCAATATG CATGGGTGACCACACTAGCACAATTTGGACGGTGCAAATGCAGGCAGGTGCAGTCACGGT ACGTAGAGCGTGCTGTGGTGCGAGCAGGGCCAGCTATAAATGCAACGAATCGGT
Protein Sequence (244 aa)
>BART1_0-u05013.001 244 150831_barley_pseudomolecules MVGDGARSAVAAGVQDIELGERRRGDEFLDDDGEEEEEEGSQYFTDAEDRSWPSHSRHES AAFEDCISRCSCGGADSDADIEAGGGHFRKSSCVSECSLDDVDLEAGLAESAKGSPDPEK AERNCRICHLGLESAAAESGAGITLGCSCKGDLSYSHKQCAETWFKIRGNKTCEICSSVA CNVVVLGDPEFTEQSNESTTAAAGHTFPTETRRFWQGHRFLNFLLACMVFAFVISWLFHF NVPG