- Transcript BART1_0-u52907.009
- Transcript IDBART1_0-u52907.009
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302903 | 305302262 | - |
| chr7H | 2 | 305303888 | 305303817 | - |
| chr7H | 3 | 305304132 | 305303990 | - |
| chr7H | 4 | 305304552 | 305304317 | - |
| chr7H | 5 | 305305059 | 305304860 | - |
| chr7H | 6 | 305305504 | 305305214 | - |
| chr7H | 7 | 305306738 | 305306483 | - |
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 | 5.44728 | 2.9781 |
| morex | ETI | 6.59333 | 9.47084 | 3.43954 |
| morex | LEA | 0.0194924 | 0.445595 | 10.0775 |
| morex | EPI | 67.8916 | 36.2044 | 62.3312 |
| morex | ROO | 0 | 0.877466 | 0 |
| morex | ROO2 | 1.24955 | 0.718875 | 1.01848 |
| morex | NOD | 6.52592 | 2.93182 | 0 |
| morex | RAC | 0.180383 | 4.57873 | 7.36566 |
| morex | INF1 | 2.92233 | 2.45114 | 0.0165131 |
| morex | INF2 | 0.158099 | 7.92201 | 0.0475468 |
| morex | CAR5 | 4.44438 | 5.0247 | 5.29067 |
| morex | CAR15 | 0.756317 | 0 | 0.569018 |
| morex | LEM | 0.0000405712 | 3.88099 | 6.25084 |
| morex | LOD | 2.18346 | 0.000259771 | 0 |
| morex | PAL | 0.550299 | 3.02895 | 0.000000152679 |
| morex | SEN | 16.37 | 11.2786 | 8.79855 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g29370.1 | +2 | 0.0 | 586 | 284/329 (86%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+2 | 5e-177 | 501 | 242/330 (73%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +2 | 0.0 | 624 | 302/329 (92%) | 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 (1840 bp)
>BART1_0-u52907.009 1840 150831_barley_pseudomolecules CTCCTCCACCAATCGCAACCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTA TCCACATCCCGAAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGC CCGCTTCACCGGAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCG CTGCTGCCGCCGCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTG CGCGCTCTCCGGCGAGAAAGGAAACTCATTTAGCTGGAACAAATGTGCAATTTCTATAGC ATTGTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGCCCATGCTTTTCC GCTCGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCCCATTAAAGATCC AGGGGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCGTGAAGTTCAAAA ACCGTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGCGTTGGATTCAGT TGAAAGAAATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACTTAC TGGTCTTGCTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGTTGG ACTTGAAGAGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCA GAAAGAGCTTCTCAATTATGTTGGAATTGTAGAAGAAGATATGGTCGATGGCTTCCCCTA TGAAGTACCAGAAGAATACAACAATATGCCTCTTCTTAAAGGAAGAGCTACTGTGGATAT GACGGTTAAGATTAAAGATAATCCAAACGTAGAAGATTGTGTATTTCGGATAGTTCTGGA TGGATATAATGCTCCTGTGACTTCTGGGAACTTCGTAGATCTGGTGGAACGGAAGTTCTA TGATGGCATGGAAATCCAAAGAGCTGATGGTTTTGTTGTTCAGACGGGAGATCCTGAGGG GCCAGCCGACGGTTTTATTGATCCCAGTACTGGCAAGAGTCGTACCATACCTCTTGAGAT AATGGTTGATGGTGACAAGGCGCCTATATACGGTGAAACACTTGAGGAACTTGGCCTTTA CAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACGATGGCAATGGCTAGAGAAGA GGCAGTGGAAACAAGGACCGAGAATAAAAGAAGTCCCTTGTTCTAACACAAGGCTTCTGC ATATCTTGACAGGAATTTGATGACAACTCCGCTTCTAGTCAAGTCTTCTGGCTCTTGAAA GAAAGTGAGTTGACGCCAAGTAATTCCAATATATTGGATGGGCGGTATTCGGTGTTTGGA TACGTAACCGAGAATGAGGATTTCTTGGCTGATCTCAAGGTGGGGGACGTTATTGAATCA ATCCAGGTTGTCTCAGGCCTAGACAATCTTGTCAACCCGAGCTACAAGATTGTAGGGTAG CATGTTTCCGTATATAAGAATTCCTTGACATGCAATTATTTTACGGTATTAAAACCGATG TCTTGTGCTGGAATTTCTAACCTTGTACCATTGTTTTGTTTTCCTTTTTGTGCTTACATA TACTCCCTCCGATCCTAAATATAAGTCTTTTTAGAGATTTCACTAAAGGATTACATATGA TGCAAAATGAGTGAATCTACACTTTAAATTATGTCTACATACATCCGTATGTAGTTTTCT AGTGGAACCTTTAAAAAGACATGTATTTAGAAACGGAGGGAGTAGTTTTGCATTATGTGG AATTCGATAGATAATGGAAAGAACAAAGTTATTTACCGTA
Protein Sequence (363 aa)
>BART1_0-u52907.009 363 150831_barley_pseudomolecules MAAALASSRCCRRPSLLNSDRRRRSVVRCALSGEKGNSFSWNKCAISIALSVGLITCPPT FGWSAHAFPLEPVIPDISVLISGPPIKDPGALLRYALPIDNKAIREVQKPLEDITDSLKV SGVRALDSVERNVRQASRALTNGRSLILTGLAESKRENGEKILDKLAVGLEELQRIIEDR NRNAVAPKQKELLNYVGIVEEDMVDGFPYEVPEEYNNMPLLKGRATVDMTVKIKDNPNVE DCVFRIVLDGYNAPVTSGNFVDLVERKFYDGMEIQRADGFVVQTGDPEGPADGFIDPSTG KSRTIPLEIMVDGDKAPIYGETLEELGLYKAQTKLPFNAFGTMAMAREEAVETRTENKRS PLF