- Transcript BART1_0-u18690.004
- Transcript IDBART1_0-u18690.004
- Gene IDBART1_0-u18690
Barley RTD
Exon Structure of BART1_0-u18690.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 67423171 | 67421725 | - |
| chr3H | 2 | 67425398 | 67425189 | - |
| chr3H | 3 | 67425680 | 67425530 | - |
| chr3H | 4 | 67425991 | 67425751 | - |
| chr3H | 5 | 67426259 | 67426201 | - |
| chr3H | 6 | 67426950 | 67426694 | - |
| chr3H | 7 | 67427189 | 67427047 | - |
| chr3H | 8 | 67427332 | 67427278 | - |
| chr3H | 9 | 67427506 | 67427429 | - |
| chr3H | 10 | 67427717 | 67427601 | - |
| chr3H | 11 | 67427994 | 67427863 | - |
| chr3H | 12 | 67430143 | 67429767 | - |
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 | 1.44373 | 9.41506 | 8.12082 |
| morex | ETI | 1.1998 | 4.02847 | 5.01631 |
| morex | LEA | 5.43747 | 2.52853 | 8.79462 |
| morex | EPI | 11.0766 | 13.6357 | 11.4412 |
| morex | ROO | 11.1886 | 13.4418 | 1.73799 |
| morex | ROO2 | 4.94317 | 6.87863 | 6.11688 |
| morex | NOD | 4.75882 | 3.53975 | 1.02349 |
| morex | RAC | 12.3559 | 15.1214 | 12.596 |
| morex | INF1 | 8.26985 | 8.58011 | 6.79552 |
| morex | INF2 | 9.01278 | 15.5087 | 18.3622 |
| morex | CAR5 | 15.2845 | 24.6986 | 9.73227 |
| morex | CAR15 | 3.21616 | 4.64823 | 2.23404 |
| morex | LEM | 5.23247 | 10.2418 | 12.9738 |
| morex | LOD | 16.1531 | 7.74869 | 10.3692 |
| morex | PAL | 18.7298 | 20.2746 | 19.8207 |
| morex | SEN | 8.72202 | 16.467 | 7.45205 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g08700.6 | +3 | 0.0 | 1567 | 807/912 (88%) | protein|GIGANTEA, putative, expressed |
| TAIR PP10 | AT1G22770 @ ARAPORT AT1G22770.1 @ TAIR |
+3 | 0.0 | 1144 | 624/929 (67%) | Symbols: GI, FB | gigantea protein (GI) | chr1:8062398-8067447 FORWARD LENGTH=1173 |
| BRACH PP3 | Bradi2g05226.1.p | +3 | 0.0 | 1643 | 846/906 (93%) | pacid=32776210 transcript=Bradi2g05226.1 locus=Bradi2g05226 ID=Bradi2g05226.1.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 (3267 bp)
>BART1_0-u18690.004 3267 150831_barley_pseudomolecules CCGCGCCCCCTGGCGATCCCGCCAGCCCCCAGCCGCGCACGCGCGAATAAGTATCTCCGC CCACCCACCGGTCGCCGACCCGCGGGCCCGCCGCCCCCACAGCCCAGGTGTCAGTCACGC AGCGCACCGCGCGGGCTCCACCCCTCGCCCCGCGAGGCGAGTGAAATAACGGAGCCAACG CTACACAGACCACCGCCTACCCCTCCCATTACGGAAAAAATCTTTTTCTCGCCTCTCCTC GCCCCTCACATTTTTCTCTCTCCTCCTCCTCCTCCTCTCTGCCTTCGCCTCTGCCTCAGC CTCGCCCGCCGCGCAATCCCGTCGCCGGCGCCGCCGATTCGCCGCCCGAGCTCCGTATTG GGGCGCTCCCGACCGAGAGACGTTAAGCGCCTATGGTTGGAACTGGTTGATATGATATCT GGTCACATTGTGGGATGCAATCCCCCCTTAGTGGGGGGTGATTGAAGAAGTCAACAATAG GAGAACTTGCATCTTGCTGAAGTTTTCTGTTTCTTGAGCAGGCTCTTAAACTACCAAGTA TGTCAGCGTCAAATGGGAAGTGGATTGATGGACTCCAGTTCTCATCACTGTTCTGGCCCC CGCCACACGATGCGCAGCAGAAACAGGCACAAATTTTAGCCTATGTTGAGTACTTTGGTC AGTTCACATCTGACAGCGAGCAATTCCCGGAGGATGTAGCTCAGCTAATTCAAACTTGCT ATCCATCAAAAGAAAAGCGGTTGGTAGATGAAGTATTAGCAACTTTTGTTCTCCATCACC CCGAGCATGGTCATGCAGTTGTACATCCAATTCTTTCACGCATCATAGACGGGACACTGA GTTATGATAGTCATGGTTCCCCATTCAATTCCTTCATCTCCTTATTTACCCAAAGTTCTG AGAAAGAGTACTCAGAGCAGTGGGCCTTGGCCTGTGGAGAGATTCTTAGAGTTCTAACTC ACTACAACAGGCCAATCTTTAAAGTTGCAGACTGTAACAACACCTCTGACCAGGCTACAA CAAGTTGTTCTGCACAGGAGAAAGCTAATTACTCTCCAGGAAATGAACCTGAACGGAAGC CATTGAGGCCATTATCTCCTTGGATCACAGATATTTTGCTAACTGCACCTTTAGGCATTA GAAGCGACTATTTTAGATGGTGTGGTGGAGTTATGGGAAAATACGCAGCTGGTGGAGAAT TGAAGCCTCCAACAACTGCTTACAGCCGAGGAGCTGGTAAGCACCCACAACTCATGCCAT CCACCCCAAGATGGGCTGTTGCCAATGGAGCTGGAGTTATTTTAAGTGTCTGTGATGAGG AAGTAGCTCGTTATGAGACAGCAAACTTAACCGCGGCAGCTGTTCCCGCCCTTCTGCTAC CTCCACCGACAACACCCTTGGATGAGCATTTGGTGGCAGGGCTACCCCCTCTTGAGCCAT ACGCTCGCTTGTTTCATAGATACTATGCAATTGCCACACCAAGTGCTACACAAAGATTGC TTTTTGGTCTTCTTGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTTC AGCTTGTTGAACTCCTTCGGGCAGCTGAAGATTATGCTACTGGCATGCGGCTTCCAAAAA ATTGGTTGCATCTTCATTTCTTGCGTGCGATTGGAACTGCAATGTCTATGAGGGCTGGTA TTGCTGCCGATACAGCTGCTGCGTTGCTTTTTCGCATACTATCCCAACCAACGTTGCTTT TTCCTCCACTAAGGCATGCTGAAGGAGTTGAAGTGCAACATGAACCACTGGGTGGCTATG TATCATCATACAAAAGACAGCTGGAAGTTCCTGCATCTGAAACCACAATTGATGCCACTG CACAAGGCATTGCTTCCTTGCTGTGTGCTCATGGTCCTGATGTTGAGTGGAGAATATGTA CCATCTGGGAAGCTGCCTATGGTTTGTTACCTCTGAATTCATCAGCAGTTGATTTGCCCG AAATCGTTGTAGCTGCTCCGCTTCAGCCACCTACTTTGTCATGGAGCCTATACTTGCCAC TGTTGAAAGTATTCGAGTATCTACCTCGTGGAAGTCCATCTGAAGCATGCCTTATGAGAA TATTTGTGGCAACAGTTGAAGCTATACTCAGAAGAACTTTCCCTTCGGAAACCTCTGAAT CATCTAAAAGACCAAGAAGTCAATCCAAGAACCTTGCTGTTGCTGAACTCCGTACAATGA TACATTCACTCTTTGTTGAATCATGTGCTTCAATGAACCTTGCTTCCCGGTTGTTGTTTG TTGTATTAACTGTTTGCGTCAGTCATCAAGCTTTGCCAGGGGGCAGCAAAAGACCAACGG GTAGTGAAAACCATTCTTCTGAGGAGGCCACTGAGGACCCAAGATTAACCAATGGAAGAA ATAAGGTCAAGAAGAAACAAGGGCCTGTTGGTACATTTGACTCGTATGTGCTGGCTGCTG TTTGTGCCTTATCTTGTGAGCTTCAGCTGTTCCCTATCCTTTGCAAGAGTGCAACAAACT CAAAAGTAAAAGACTCTATAAAGATCCTGAAGCCTGGAAAAAACAATGGGATCAGTAATG AGCTACAGAATAGCATTAGCTCAGCAATTCTCCATACTCGTAGAATTCTTGGCATCCTGG AAGCTCTTTTCTCCTTGAAGCCATCATCAGTTGGTACCTCCTGGAACTATAGTTCAAATG AGATAGTTGCAGCGGCTATGGTTGCCGCTCATGTTTCTGAGTTATTTCGCCGGTCGAGGC CATGCCTAAATGCACTATCTTCACTGAAGCGATGTAAGTGGGATGCTGAGATTTCTACCA GGGCATCATCCCTTTACCATTTGATCGATTTGCATGGTAAAACTGTGTCCTCCATCGTGA ACAAAGCTGAGCCTCTAGAAGCTCACCTGACTTTTACATCAGTAAAGAGAGATGGTCAAC AACACATTGAGGAAAACAGCACCAGCTCATCGGGTAATGGCAACTTGGAAAAGAAGAATG CTTCAGCCTCACACATGAAAAATGGTTTTTCAAGACCACTCTTGAAATGCTCAGAAGAGG CTAGGCGAAATGGTAATGTTGCAAGTACATCCGGGAAAGTTCCTGCAACTTTACAGGCTG AAGCATCTGATTTGGCTAACTTCCTTACCATGGATAGAAATGGGGGTTATCGAGGCTCTC AGACTCTCCTAAGTTCTGTTATCTCAGAAAAACAGGAATTATGCTTCTCTGTTGTCTCAT TGCTCTGGCATAAGCTTGCATGCNNNN
Protein Sequence (909 aa)
>BART1_0-u18690.004 909 150831_barley_pseudomolecules MSASNGKWIDGLQFSSLFWPPPHDAQQKQAQILAYVEYFGQFTSDSEQFPEDVAQLIQTC YPSKEKRLVDEVLATFVLHHPEHGHAVVHPILSRIIDGTLSYDSHGSPFNSFISLFTQSS EKEYSEQWALACGEILRVLTHYNRPIFKVADCNNTSDQATTSCSAQEKANYSPGNEPERK PLRPLSPWITDILLTAPLGIRSDYFRWCGGVMGKYAAGGELKPPTTAYSRGAGKHPQLMP STPRWAVANGAGVILSVCDEEVARYETANLTAAAVPALLLPPPTTPLDEHLVAGLPPLEP YARLFHRYYAIATPSATQRLLFGLLEAPPSWAPDALDAAVQLVELLRAAEDYATGMRLPK NWLHLHFLRAIGTAMSMRAGIAADTAAALLFRILSQPTLLFPPLRHAEGVEVQHEPLGGY VSSYKRQLEVPASETTIDATAQGIASLLCAHGPDVEWRICTIWEAAYGLLPLNSSAVDLP EIVVAAPLQPPTLSWSLYLPLLKVFEYLPRGSPSEACLMRIFVATVEAILRRTFPSETSE SSKRPRSQSKNLAVAELRTMIHSLFVESCASMNLASRLLFVVLTVCVSHQALPGGSKRPT GSENHSSEEATEDPRLTNGRNKVKKKQGPVGTFDSYVLAAVCALSCELQLFPILCKSATN SKVKDSIKILKPGKNNGISNELQNSISSAILHTRRILGILEALFSLKPSSVGTSWNYSSN EIVAAAMVAAHVSELFRRSRPCLNALSSLKRCKWDAEISTRASSLYHLIDLHGKTVSSIV NKAEPLEAHLTFTSVKRDGQQHIEENSTSSSGNGNLEKKNASASHMKNGFSRPLLKCSEE ARRNGNVASTSGKVPATLQAEASDLANFLTMDRNGGYRGSQTLLSSVISEKQELCFSVVS LLWHKLACX