- Transcript BART1_0-u27957.002
- Transcript IDBART1_0-u27957.002
- Gene IDBART1_0-u27957
Barley RTD
Exon Structure of BART1_0-u27957.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 166877905 | 166876660 | - |
| chr4H | 2 | 166878371 | 166878081 | - |
| chr4H | 3 | 166882942 | 166881947 | - |
| chr4H | 4 | 166885518 | 166884994 | - |
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 | 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 | 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_Os11g47970.1 | +1 | 0.0 | 752 | 361/420 (86%) | protein|AAA-type ATPase family protein, putative, expressed |
| TAIR PP10 | AT2G39730 @ ARAPORT AT2G39730.3 @ TAIR |
+1 | 0.0 | 706 | 340/422 (81%) | Symbols: RCA | rubisco activase | chr2:16571174-16573345 REVERSE LENGTH=441 |
| BRACH PP3 | Bradi4g09125.1.p | +1 | 0.0 | 791 | 379/432 (88%) | pacid=32783475 transcript=Bradi4g09125.1 locus=Bradi4g09125 ID=Bradi4g09125.1.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 (3058 bp)
>BART1_0-u27957.002 3058 150831_barley_pseudomolecules TGGGAGATGCCCAACCCTATCCACACAATTAACATCTCATCATCCACTCCACTTGGCTCG CCTCACTAGCTACTTATCGCAGCCGGCCTGATAATCACAGCTTATGTGGCTTGACTGCGT GATTACGCAGGGACGCTCTAGAATAGTCTCTCACGCTCTAGGTCACTCCAGTCGTGTTGG ACGCTTGCTCCATGGCCATCTGTCCATGCACCTATATAAGACGCCATGGCCAAGCTCCAT CGATCGGCATCGCATCTGTACCTGCTAACCACTGCACCCCTCTCTTTTATCCATATCAGC TCCATCCATCACTGACGATCGATCTCAGTCCACCTGCATCTGTAGGTGTACTAGTAGTAC GCCGGCCTAATCCAGCTGAGAGCTGATCGAGCTAGCTTGCATATACCACTGCACGTACGC ACATCAAATTAATTAGAAACTACTGTAATTAAGTTATCAGCAGCGAGAAGAGAACGATCG ATCAACACCATGGCTTCTGCTTTCTCGTCCACCGTTGGAGCTCCGGCGTCGACCCCGACC ATCTTCCTGGGCAAGAAGGTGAAGAACTACTACCATGGTGGCAACAAGATGAAGAGCAGG GTGGTGAGGGTCATGGCGGCCAAAAAGGAACTTGACCAGGGCAAGCAGACCGATGCGGAC CGGTGGAAGGGTCTGGCCTACGACATCTCGGACGACCAGCAGGACATCACTCGGGGGAAA GGCATCGTGGACTCCCTGTTCCAGGCCCCCATGGGCGACGGCACCCACGAGGCCATCCTA AGCTCCTACGAGTACATCAGCCAGGGCCTGCGGAAGTACGACTTCGACAACACCATGGAC GGGCTGTACATCGCGCCGGCATTCATGGACAAGCTCATCGTCCACCTCGCCAAGAACTTC ATGACACTCCCCAACATCAAGGTTCCTCTCATCCTGGGTATCTGGGGAGGCAAGGGACAG GGCAAGTCGTTCCAGTGTGAGCTGGTGTTCGCCAAGATGGGCATCAACCCCATCATGATG AGCGCCGGTGAGCTGGAGAGCGGCAACGCCGGCGAGCCGGCCAAGCTGATCCGGCAGAGG TACCGCGAGGCGGCCGACATTATCAACAAGGGCAAGATGTGCTGCCTCTTCATCAACGAC CTGGACGCCGGCGCGGGCCGGATGGGCGGGACGACGCAGTACACGGTGAACAACCAGATG GTGAACGCCACCCTGATGAACATCGCGGACGCGCCCACCAACGTGCAGCTCCCGGGGATG TACAACAAGGAGGAGAACCCCCGCGTGCCCATCATCGTCACCGGCAACGACTTCTCGACG CTGTACGCTCCCCTGATCCGTGACGGGCGCATGGAGAAGTTCTACTGGGCGCCCACCCGC GAGGACCGCATCGGCGTGTGCAAGGGCATCTTCCGCACCGACAACGTCCCGGACGAGGCC GTGGTGAGGCTGGTGGACACCTTCCCGGGGCAGTCCATCGACTTCTTCGGCGCGCTGCGG GCACGGGTGTACGACGACGAGGTGCGCAAGTGGGTCGGCTCTACCGGAATCGAGAACATT GGCAAGAGGCTGGTGAACTCGCGGGACGGGCCCGTGACCTTCGAGCAGCCAAAGATGACA GTCGAGAAGCTGCTAGAGTACGGGCACATGCTCGTCCAGGAGCAGGACAATGTCAAGCGT GTGCAGCTTGCTGACACCTACATGAGCCAGGCAGCTCTGGGTGATGCTAACCAGGATGCG ATGAAGACTGGTTCCTTCTACGGTTAGAAAATTCTCCATACACACCCACCATCTCTTGCT GCATAGGAGGAGGTAAAGGAGCACAGCAAGGTACTTTGCCCGTGCCGGAAGGTTGCACCG ACCAAAATGCCAAGAACTACGACCCAACGGCAAGGAGCGACGACGGCAGCTGCCTTTACA CCTTTTAAGCATGCCACTTTTAATATCTGATGTTTTACCTACCTAAGTCCGCATCGCATC CAAGCGATTGCTGGGCATGTTTTGTTAATATATCTCTAAATATATTGAGTATACCCATTT GGCAAAGACCAATACACCTACTTATCATTTGTCACTCTCAGTATTCATTCCTTCAGTGGA GACTCCTTCTGCTTTGTTGCAAACAGAACAAGAAAGTATTAATTTGAGCTTCAGCTTATT AATTATTATTGCACAAACGCATGGAAACTGAGAGTCAATTGCGATCATGCGATACATACA GCGTGTAATTTTAGCCCTGATGTTCCAACGTCCAAATTAGATCCCCAAAACTAAACGTCA TTTAAGCTTAGAAAGACAAACAGAAAGGAGCAGTTGTTTCAAATGATTGCTGTGGAGAAC TACATCCTTAATAAGCAGCTGCATCATGATGTGGTTCCCTAAGAGCATCTCCAGCCGTTC GATCTTCCGGGGCGTAAAATAGCGCCTCCTGGAGGCGCGTCGGCGGAAAAATCGACGTGG GAGGCTCGGGTTCCCAGCCGTCCCCCAAGGTCGCCCCCACCCGCTGATTTCTGCACATTT TCGGTGCTAATTGGCCCACTTTCAGCGCAAATTGGTTCACTTTCGACGCAAAATGAGACC AATTTTGATCCATATTCAGCATGCTTTAACACAAATTAAACAAATCATTTATTTTTCTAT CACATAGTTCATCACAGAAATCAATACAAATCAAAAATAGTTTAACAAATCAAAATAGTT CAACAAATAAAAACTCATAATTCATCACACATCGAGCTAGGCGTTGCCCTTAAGCCTCCA TAGGTACTCCACCAAATCGGTTTATAGTTGTTGATGCACCTGTGGGTCTCGAATCTCCTG ACACATGTTGATGAAGGCACTCGAAGTTGCCGGTAGCTGGTGATCAACTTGGGCAAGGGG ACCCTGCCTGTAATATGGTTCAATGTCAAAGACGGGCTCTTCCCGCTCGCTCTCAATGTT CATGTTGTGCAAGATGACACACCAAGTCATGTCTTCTCACATTTGATCTTTCGACCACGT CTGAGCGGAGTATCGAACAATAGAAAAACGAGATTGGAGCACACCAAATGCTCGCTCG
Protein Sequence (425 aa)
>BART1_0-u27957.002 425 150831_barley_pseudomolecules MASAFSSTVGAPASTPTIFLGKKVKNYYHGGNKMKSRVVRVMAAKKELDQGKQTDADRWK GLAYDISDDQQDITRGKGIVDSLFQAPMGDGTHEAILSSYEYISQGLRKYDFDNTMDGLY IAPAFMDKLIVHLAKNFMTLPNIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAG ELESGNAGEPAKLIRQRYREAADIINKGKMCCLFINDLDAGAGRMGGTTQYTVNNQMVNA TLMNIADAPTNVQLPGMYNKEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDR IGVCKGIFRTDNVPDEAVVRLVDTFPGQSIDFFGALRARVYDDEVRKWVGSTGIENIGKR LVNSRDGPVTFEQPKMTVEKLLEYGHMLVQEQDNVKRVQLADTYMSQAALGDANQDAMKT GSFYG