- Transcript BART1_0-u52907.003
- Transcript IDBART1_0-u52907.003
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302829 | 305302237 | - |
| chr7H | 2 | 305303888 | 305303578 | - |
| chr7H | 3 | 305304132 | 305303990 | - |
| chr7H | 4 | 305304552 | 305304317 | - |
| chr7H | 5 | 305305059 | 305304860 | - |
| chr7H | 6 | 305305504 | 305305214 | - |
| chr7H | 7 | 305306735 | 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 | 0.0165836 | 1.09108 |
| morex | ETI | 0.0000088304 | 0.000000617712 | 0 |
| morex | LEA | 0 | 0 | 0.000000528178 |
| morex | EPI | 3.54174 | 1.99312 | 2.60797 |
| morex | ROO | 0 | 0 | 0.57344 |
| morex | ROO2 | 1.41935 | 0.000278207 | 0.000537693 |
| morex | NOD | 1.70265 | 0.0000013256 | 0 |
| morex | RAC | 0 | 0.0000121237 | 0 |
| morex | INF1 | 0 | 0 | 0.000000062494 |
| morex | INF2 | 0 | 0.359769 | 0 |
| morex | CAR5 | 0 | 0 | 3.82387 |
| morex | CAR15 | 0.199722 | 0 | 0.757018 |
| morex | LEM | 0 | 0 | 0.00000579216 |
| morex | LOD | 0.0000239475 | 0.00000000115661 | 0 |
| morex | PAL | 0.00000410286 | 0.00000207069 | 0 |
| morex | SEN | 0.00000871691 | 0.0000271829 | 0.0000348027 |
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 | 585 | 283/328 (86%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+2 | 5e-172 | 498 | 241/329 (73%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +2 | 0.0 | 622 | 301/328 (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 (2027 bp)
>BART1_0-u52907.003 2027 150831_barley_pseudomolecules CTCCACCAATCGCAACCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTATCC ACATCCCGAAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGCCCG CTTCACCGGAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCTG CTGCCGCCGCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCGC GCTCTCCGGCGAGAAAGGAAACTCATTTAGCTGGAACAAATGTGCAATTTCTATAGCATT GTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGCCCATGCTTTTCCGCT CGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCCCATTAAAGATCCAGG GGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCGTGAAGTTCAAAAACC GTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGCGTTGGATTCAGTTGA AAGAAATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACTTACTGG TCTTGCTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGTTGGACT TGAAGAGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCAGAA AGAGCTTCTCAATTATGTTGGAATTGTAGAAGAAGATATGGTCGATGGCTTCCCCTATGA AGTACCAGAAGAATACAACAATATGCCTCTTCTTAAAGGAAGAGCTACTGTGGATATGAC GGTTAAGATTAAAGATAATCCAAACGTAGAAGATTGTGTATTTCGGATAGTTCTGGATGG ATATAATGCTCCTGTGACTTCTGGGAACTTCGTAGATCTGGTGGAACGGAAGTTCTATGA TGGCATGGAAATCCAAAGAGCTGATGGTTTTGTTGTTCAGACGGGAGATCCTGAGGGGCC AGCCGACGGTTTTATTGATCCCAGTACTGGCAAGAGTCGTACCATACCTCTTGAGATAAT GGTTGATGGTGACAAGGCGCCTATATACGGTGAAACACTTGAGGAACTTGGCCTTTACAA GGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACGATGGCAATGGCTAGAGAAGTAAG GCTCACCTAGACTCTTTAGTTTTAACATATCAAGGATATGCCAAAATAATTATTACATCC TCCAGAAATATAAAGTGCACATGCTTCCCCAAATTTATCGTTGATCACGAATTTGTTCAG CAATATGTGATACAAAGTTGATACTCCCTCTGTCCCATAATATAAGATGTTAATACAACC ATATTGGTTCATTTATAGTTGGATTATTCTTCGGAGGTTAAACTTCAATAACGGGAATTT GATGACAACTCCGCTTCTAGTCAAGTCTTCTGGCTCTTGAAAGAAAGTGAGTTGACGCCA AGTAATTCCAATATATTGGATGGGCGGTATTCGGTGTTTGGATACGTAACCGAGAATGAG GATTTCTTGGCTGATCTCAAGGTGGGGGACGTTATTGAATCAATCCAGGTTGTCTCAGGC CTAGACAATCTTGTCAACCCGAGCTACAAGATTGTAGGGTAGCATGTTTCCGTATATAAG AATTCCTTGACATGCAATTATTTTACGGTATTAAAACCGATGTCTTGTGCTGGAATTTCT AACCTTGTACCATTGTTTTGTTTTCCTTTTTGTGCTTACATATACTCCCTCCGATCCTAA ATATAAGTCTTTTTAGAGATTTCACTAAAGGATTACATATGATGCAAAATGAGTGAATCT ACACTTTAAATTATGTCTACATACATCCGTATGTAGTTTTCTAGTGGAACCTTTAAAAAG ACATGTATTTAGAAACGGAGGGAGTAGTTTTGCATTATGTGGAATTCGATAGATAATGGA AAGAACAAAGTTATTTACCGTAATCAGTTTCCTCGATAAACTATGCG
Protein Sequence (352 aa)
>BART1_0-u52907.003 352 150831_barley_pseudomolecules MAAALASSRCCRRPSLLNSDRRRRSVVRCALSGEKGNSFSWNKCAISIALSVGLITCPPT FGWSAHAFPLEPVIPDISVLISGPPIKDPGALLRYALPIDNKAIREVQKPLEDITDSLKV SGVRALDSVERNVRQASRALTNGRSLILTGLAESKRENGEKILDKLAVGLEELQRIIEDR NRNAVAPKQKELLNYVGIVEEDMVDGFPYEVPEEYNNMPLLKGRATVDMTVKIKDNPNVE DCVFRIVLDGYNAPVTSGNFVDLVERKFYDGMEIQRADGFVVQTGDPEGPADGFIDPSTG KSRTIPLEIMVDGDKAPIYGETLEELGLYKAQTKLPFNAFGTMAMAREVRLT