- Transcript BART1_0-u52907.004
- Transcript IDBART1_0-u52907.004
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302829 | 305302247 | - |
| chr7H | 2 | 305304132 | 305303817 | - |
| chr7H | 3 | 305304585 | 305304317 | - |
| chr7H | 4 | 305305059 | 305304860 | - |
| chr7H | 5 | 305305504 | 305305214 | - |
| chr7H | 6 | 305306732 | 305306359 | - |
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 | 0 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0.0437851 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0.174656 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 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_Os08g29370.1 | +3 | 0.0 | 518 | 253/299 (85%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+3 | 7e-176 | 447 | 219/310 (71%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +3 | 0.0 | 545 | 268/311 (86%) | pacid=32818759 transcript=Bradi3g34940.1 locus=Bradi3g34940 ID=Bradi3g34940.1.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 (2033 bp)
>BART1_0-u52907.004 2033 150831_barley_pseudomolecules CACCAATCGCAACCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTATCCACA TCCCGAAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGCCCGCTT CACCGGAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCTGCTG CCGCCGCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCGCGCT CTCCGGCGAGGTTAGGATCTTACAACTCATTACGGTGGCTCCTGGAAGATAGCTCCTGGT GGACATTCTGCTTTTGGATGATGCATGCCAATGTGGCTCAGTATTGCTGCATTTCTAAAT ACAGTTGTGCCCGGAAAGGAAACTCATTTAGCTGGAACAAATGTGCAATTTCTATAGCAT TGTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGCCCATGCTTTTCCGC TCGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCCCATTAAAGATCCAG GGGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCGTGAAGTTCAAAAAC CGTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGCGTTGGATTCAGTTG AAAGAAATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACTTACTG GTCTTGCTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGTTGGAC TTGAAGAGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCAGA AAGAGCTTCTCAATTATGTTGGAATCTGAGATCTTCCTGGGACATTGCATTTCTGCAGTG TAGAAGAAGATATGGTCGATGGCTTCCCCTATGAAGTACCAGAAGAATACAACAATATGC CTCTTCTTAAAGGAAGAGCTACTGTGGATATGACGGTTAAGATTAAAGATAATCCAAACG TAGAAGATTGTGTATTTCGGATAGTTCTGGATGGATATAATGCTCCTGTGACTTCTGGGA ACTTCGTAGATCTGGTGGAACGGAAGTTCTATGATGGCATGGAAATCCAAAGAGCTGATG GTTTTGTTGTTCAGACGGGAGATCCTGAGGGGCCAGCCGACGGTTTTATTGATCCCAGTA CTGGCAAGAGTCGTACCATACCTCTTGAGATAATGGTTGATGGTGACAAGGCGCCTATAT ACGGTGAAACACTTGAGGTATGCAACCAGCAGTTTTTTTATTTTTATTTCATGGCTGCTG GGAATTCTGGCTGCTTCGGATTGAATGTTCTTACAGTTTGTATGGCCATGCATTTCAGGA ACTTGGCCTTTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACGATGGCAAT GGCTAGAGAAGAATTTGATGACAACTCCGCTTCTAGTCAAGTCTTCTGGCTCTTGAAAGA AAGTGAGTTGACGCCAAGTAATTCCAATATATTGGATGGGCGGTATTCGGTGTTTGGATA CGTAACCGAGAATGAGGATTTCTTGGCTGATCTCAAGGTGGGGGACGTTATTGAATCAAT CCAGGTTGTCTCAGGCCTAGACAATCTTGTCAACCCGAGCTACAAGATTGTAGGGTAGCA TGTTTCCGTATATAAGAATTCCTTGACATGCAATTATTTTACGGTATTAAAACCGATGTC TTGTGCTGGAATTTCTAACCTTGTACCATTGTTTTGTTTTCCTTTTTGTGCTTACATATA CTCCCTCCGATCCTAAATATAAGTCTTTTTAGAGATTTCACTAAAGGATTACATATGATG CAAAATGAGTGAATCTACACTTTAAATTATGTCTACATACATCCGTATGTAGTTTTCTAG TGGAACCTTTAAAAAGACATGTATTTAGAAACGGAGGGAGTAGTTTTGCATTATGTGGAA TTCGATAGATAATGGAAAGAACAAAGTTATTTACCGTAATCAGTTTCCTCGAT
Protein Sequence (288 aa)
>BART1_0-u52907.004 288 150831_barley_pseudomolecules PIATRPPLLWLHILSGLIHIPKPPPAPPLPSFFLPPTPASPEPYPHPTAWPRRSPPPAAA AALRFLTVIVAAAPSSGARSPARLGSYNSLRWLLEDSSWWTFCFWMMHANVAQYCCISKY SCARKGNSFSWNKCAISIALSVGLITCPPTFGWSAHAFPLEPVIPDISVLISGPPIKDPG ALLRYALPIDNKAIREVQKPLEDITDSLKVSGVRALDSVERNVRQASRALTNGRSLILTG LAESKRENGEKILDKLAVGLEELQRIIEDRNRNAVAPKQKELLNYVGI