- Transcript BART1_0-u18690.005
- Transcript IDBART1_0-u18690.005
- Gene IDBART1_0-u18690
Barley RTD
Exon Structure of BART1_0-u18690.005
| 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 | 67427705 | 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 | 0 | 0 | 0 |
| morex | ETI | 1.53145 | 0.000000265188 | 1.19647 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.0165475 | 0 | 0.0000000861342 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 1.33496 | 0.762362 | 0.0112822 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0.863947 | 2.04787 | 0.0002931 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0.00608691 | 0.00000000340451 |
| morex | LEM | 0.0000000544469 | 0.943739 | 1.86171 |
| morex | LOD | 0 | 0.0070227 | 0.000423075 |
| morex | PAL | 0.000122231 | 0.0000609298 | 1.58545 |
| morex | SEN | 1.52164 | 2.01868 | 0.00000178593 |
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 (3255 bp)
>BART1_0-u18690.005 3255 150831_barley_pseudomolecules CCGCGCCCCCTGGCGATCCCGCCAGCCCCCAGCCGCGCACGCGCGAATAAGTATCTCCGC CCACCCACCGGTCGCCGACCCGCGGGCCCGCCGCCCCCACAGCCCAGGTGTCAGTCACGC AGCGCACCGCGCGGGCTCCACCCCTCGCCCCGCGAGGCGAGTGAAATAACGGAGCCAACG CTACACAGACCACCGCCTACCCCTCCCATTACGGAAAAAATCTTTTTCTCGCCTCTCCTC GCCCCTCACATTTTTCTCTCTCCTCCTCCTCCTCCTCTCTGCCTTCGCCTCTGCCTCAGC CTCGCCCGCCGCGCAATCCCGTCGCCGGCGCCGCCGATTCGCCGCCCGAGCTCCGTATTG GGGCGCTCCCGACCGAGAGACGTTAAGCGCCTATGGTTGGAACTGGTTGATATGATATCT GGTCACATTGTGGGATGCAATCCCCCCTTAGTGGGGGGTGATTGAAGAAGTCAACAATAG GAGAACTTGCATCTTGCTGAAGTTTTCTGGCTCTTAAACTACCAAGTATGTCAGCGTCAA ATGGGAAGTGGATTGATGGACTCCAGTTCTCATCACTGTTCTGGCCCCCGCCACACGATG CGCAGCAGAAACAGGCACAAATTTTAGCCTATGTTGAGTACTTTGGTCAGTTCACATCTG ACAGCGAGCAATTCCCGGAGGATGTAGCTCAGCTAATTCAAACTTGCTATCCATCAAAAG AAAAGCGGTTGGTAGATGAAGTATTAGCAACTTTTGTTCTCCATCACCCCGAGCATGGTC ATGCAGTTGTACATCCAATTCTTTCACGCATCATAGACGGGACACTGAGTTATGATAGTC ATGGTTCCCCATTCAATTCCTTCATCTCCTTATTTACCCAAAGTTCTGAGAAAGAGTACT CAGAGCAGTGGGCCTTGGCCTGTGGAGAGATTCTTAGAGTTCTAACTCACTACAACAGGC CAATCTTTAAAGTTGCAGACTGTAACAACACCTCTGACCAGGCTACAACAAGTTGTTCTG CACAGGAGAAAGCTAATTACTCTCCAGGAAATGAACCTGAACGGAAGCCATTGAGGCCAT TATCTCCTTGGATCACAGATATTTTGCTAACTGCACCTTTAGGCATTAGAAGCGACTATT TTAGATGGTGTGGTGGAGTTATGGGAAAATACGCAGCTGGTGGAGAATTGAAGCCTCCAA CAACTGCTTACAGCCGAGGAGCTGGTAAGCACCCACAACTCATGCCATCCACCCCAAGAT GGGCTGTTGCCAATGGAGCTGGAGTTATTTTAAGTGTCTGTGATGAGGAAGTAGCTCGTT ATGAGACAGCAAACTTAACCGCGGCAGCTGTTCCCGCCCTTCTGCTACCTCCACCGACAA CACCCTTGGATGAGCATTTGGTGGCAGGGCTACCCCCTCTTGAGCCATACGCTCGCTTGT TTCATAGATACTATGCAATTGCCACACCAAGTGCTACACAAAGATTGCTTTTTGGTCTTC TTGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTTCAGCTTGTTGAAC TCCTTCGGGCAGCTGAAGATTATGCTACTGGCATGCGGCTTCCAAAAAATTGGTTGCATC TTCATTTCTTGCGTGCGATTGGAACTGCAATGTCTATGAGGGCTGGTATTGCTGCCGATA CAGCTGCTGCGTTGCTTTTTCGCATACTATCCCAACCAACGTTGCTTTTTCCTCCACTAA GGCATGCTGAAGGAGTTGAAGTGCAACATGAACCACTGGGTGGCTATGTATCATCATACA AAAGACAGCTGGAAGTTCCTGCATCTGAAACCACAATTGATGCCACTGCACAAGGCATTG CTTCCTTGCTGTGTGCTCATGGTCCTGATGTTGAGTGGAGAATATGTACCATCTGGGAAG CTGCCTATGGTTTGTTACCTCTGAATTCATCAGCAGTTGATTTGCCCGAAATCGTTGTAG CTGCTCCGCTTCAGCCACCTACTTTGTCATGGAGCCTATACTTGCCACTGTTGAAAGTAT TCGAGTATCTACCTCGTGGAAGTCCATCTGAAGCATGCCTTATGAGAATATTTGTGGCAA CAGTTGAAGCTATACTCAGAAGAACTTTCCCTTCGGAAACCTCTGAATCATCTAAAAGAC CAAGAAGTCAATCCAAGAACCTTGCTGTTGCTGAACTCCGTACAATGATACATTCACTCT TTGTTGAATCATGTGCTTCAATGAACCTTGCTTCCCGGTTGTTGTTTGTTGTATTAACTG TTTGCGTCAGTCATCAAGCTTTGCCAGGGGGCAGCAAAAGACCAACGGGTAGTGAAAACC ATTCTTCTGAGGAGGCCACTGAGGACCCAAGATTAACCAATGGAAGAAATAAGGTCAAGA AGAAACAAGGGCCTGTTGGTACATTTGACTCGTATGTGCTGGCTGCTGTTTGTGCCTTAT CTTGTGAGCTTCAGCTGTTCCCTATCCTTTGCAAGAGTGCAACAAACTCAAAAGTAAAAG ACTCTATAAAGATCCTGAAGCCTGGAAAAAACAATGGGATCAGTAATGAGCTACAGAATA GCATTAGCTCAGCAATTCTCCATACTCGTAGAATTCTTGGCATCCTGGAAGCTCTTTTCT CCTTGAAGCCATCATCAGTTGGTACCTCCTGGAACTATAGTTCAAATGAGATAGTTGCAG CGGCTATGGTTGCCGCTCATGTTTCTGAGTTATTTCGCCGGTCGAGGCCATGCCTAAATG CACTATCTTCACTGAAGCGATGTAAGTGGGATGCTGAGATTTCTACCAGGGCATCATCCC TTTACCATTTGATCGATTTGCATGGTAAAACTGTGTCCTCCATCGTGAACAAAGCTGAGC CTCTAGAAGCTCACCTGACTTTTACATCAGTAAAGAGAGATGGTCAACAACACATTGAGG AAAACAGCACCAGCTCATCGGGTAATGGCAACTTGGAAAAGAAGAATGCTTCAGCCTCAC ACATGAAAAATGGTTTTTCAAGACCACTCTTGAAATGCTCAGAAGAGGCTAGGCGAAATG GTAATGTTGCAAGTACATCCGGGAAAGTTCCTGCAACTTTACAGGCTGAAGCATCTGATT TGGCTAACTTCCTTACCATGGATAGAAATGGGGGTTATCGAGGCTCTCAGACTCTCCTAA GTTCTGTTATCTCAGAAAAACAGGAATTATGCTTCTCTGTTGTCTCATTGCTCTGGCATA AGCTTGCATGCNNNN
Protein Sequence (909 aa)
>BART1_0-u18690.005 909 150831_barley_pseudomolecules MSASNGKWIDGLQFSSLFWPPPHDAQQKQAQILAYVEYFGQFTSDSEQFPEDVAQLIQTC YPSKEKRLVDEVLATFVLHHPEHGHAVVHPILSRIIDGTLSYDSHGSPFNSFISLFTQSS EKEYSEQWALACGEILRVLTHYNRPIFKVADCNNTSDQATTSCSAQEKANYSPGNEPERK PLRPLSPWITDILLTAPLGIRSDYFRWCGGVMGKYAAGGELKPPTTAYSRGAGKHPQLMP STPRWAVANGAGVILSVCDEEVARYETANLTAAAVPALLLPPPTTPLDEHLVAGLPPLEP YARLFHRYYAIATPSATQRLLFGLLEAPPSWAPDALDAAVQLVELLRAAEDYATGMRLPK NWLHLHFLRAIGTAMSMRAGIAADTAAALLFRILSQPTLLFPPLRHAEGVEVQHEPLGGY VSSYKRQLEVPASETTIDATAQGIASLLCAHGPDVEWRICTIWEAAYGLLPLNSSAVDLP EIVVAAPLQPPTLSWSLYLPLLKVFEYLPRGSPSEACLMRIFVATVEAILRRTFPSETSE SSKRPRSQSKNLAVAELRTMIHSLFVESCASMNLASRLLFVVLTVCVSHQALPGGSKRPT GSENHSSEEATEDPRLTNGRNKVKKKQGPVGTFDSYVLAAVCALSCELQLFPILCKSATN SKVKDSIKILKPGKNNGISNELQNSISSAILHTRRILGILEALFSLKPSSVGTSWNYSSN EIVAAAMVAAHVSELFRRSRPCLNALSSLKRCKWDAEISTRASSLYHLIDLHGKTVSSIV NKAEPLEAHLTFTSVKRDGQQHIEENSTSSSGNGNLEKKNASASHMKNGFSRPLLKCSEE ARRNGNVASTSGKVPATLQAEASDLANFLTMDRNGGYRGSQTLLSSVISEKQELCFSVVS LLWHKLACX