- Transcript BART1_0-u18690.012
- Transcript IDBART1_0-u18690.012
- Gene IDBART1_0-u18690
Barley RTD
Exon Structure of BART1_0-u18690.012
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 67423171 | 67421742 | - |
| 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 | 67427361 | 67427278 | - |
| chr3H | 9 | 67427506 | 67427429 | - |
| chr3H | 10 | 67427994 | 67427601 | - |
| chr3H | 11 | 67430018 | 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 | 0.693011 | 13.468 | 12.1186 |
| morex | ETI | 2.80488 | 3.41934 | 6.64606 |
| morex | LEA | 12.4294 | 4.43563 | 4.66318 |
| morex | EPI | 10.5917 | 9.66167 | 14.1203 |
| morex | ROO | 7.5843 | 3.93294 | 4.82182 |
| morex | ROO2 | 1.51228 | 1.12987 | 2.97832 |
| morex | NOD | 4.46533 | 1.07229 | 2.12793 |
| morex | RAC | 4.13963 | 2.58047 | 6.8003 |
| morex | INF1 | 10.6488 | 7.64003 | 6.83093 |
| morex | INF2 | 11.4664 | 5.3075 | 12.477 |
| morex | CAR5 | 6.74071 | 7.52553 | 9.23849 |
| morex | CAR15 | 3.71272 | 4.27076 | 3.60681 |
| morex | LEM | 4.92287 | 4.15942 | 5.48867 |
| morex | LOD | 6.32139 | 3.91688 | 3.61739 |
| morex | PAL | 5.45368 | 2.74163 | 4.56164 |
| morex | SEN | 7.41777 | 13.5682 | 5.52892 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g08700.6 | +1 | 0.0 | 1456 | 756/855 (88%) | protein|GIGANTEA, putative, expressed |
| TAIR PP10 | AT1G22770 @ ARAPORT AT1G22770.1 @ TAIR |
+1 | 0.0 | 1057 | 584/873 (67%) | Symbols: GI, FB | gigantea protein (GI) | chr1:8062398-8067447 FORWARD LENGTH=1173 |
| BRACH PP3 | Bradi2g05226.1.p | +1 | 0.0 | 1526 | 797/864 (92%) | 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 (3299 bp)
>BART1_0-u18690.012 3299 150831_barley_pseudomolecules ACCGCGCGGGCTCCACCCCTCGCCCCGCGAGGCGAGTGAAATAACGGAGCCAACGCTACA CAGACCACCGCCTACCCCTCCCATTACGGAAAAAATCTTTTTCTCGCCTCTCCTCGCCCC TCACATTTTTCTCTCTCCTCCTCCTCCTCCTCTCTGCCTTCGCCTCTGCCTCAGCCTCGC CCGCCGCGCAATCCCGTCGCCGGCGCCGCCGATTCGCCGCCCGAGCTCCGTATTGGGGCG CTCCCGACCGAGAGACGTTAAGCGCCTATGGTTGGAACTGGTTGATATGATATCTGGTCA CATTGTGGGATGCAATCCCCCCTTAGTGGGGGGTGATTGAAGAAGTCAACAATAGGAGAA CTTGCATCTTGCTGAAGTTTTCTGGTACTGAGGCAAGTAGCTTATAAGAAGAATAGGGAA TGGCATAGATGGATAACTGACCCGCTATTTTAGCATGCTGTTGAATATGCTTTTATTGCT AACTGGGGCAGTTTTTCTAATTTCTTTCTTTCTGAGTGTTCCTCTCTAGTTTCTTGAGCA GGCTCTTAAACTACCAAGTATGTCAGCGTCAAATGGGAAGTGGATTGATGGACTCCAGTT CTCATCACTGTTCTGGCCCCCGCCACACGATGCGCAGCAGAAACAGGCACAAATTTTAGC CTATGTTGAGTACTTTGGTCAGTTCACATCTGACAGCGAGCAATTCCCGGAGGATGTAGC TCAGACCCCTCCATCTTTCTTGCTTGTGTGCAGCTAATTCAAACTTGCTATCCATCAAAA GAAAAGCGGTTGGTAGATGAAGTATTAGCAACTTTTGTTCTCCATCACCCCGAGCATGGT CATGCAGTTGTACATCCAATTCTTTCACGCATCATAGACGGGACACTGAGTTATGATAGT CATGGTTCCCCATTCAATTCCTTCATCTCCTTATTTACCCAAAGTTCTGAGAAAGAGTAC TCAGAGCAGTGGGCCTTGGCCTGTGGAGAGATTCTTAGAGTTCTAACTCACTACAACAGG CCAATCTTTAAAGTTGCAGACTGTAACAACACCTCTGACCAGGCTACAACAAGTTGTTCT GCACAGGAGAAAGCTAATTACTCTCCAGGAAATGAACCTGAACGGAAGCCATTGAGGCCA TTATCTCCTTGGATCACAGATATTTTGCTAACTGCACCTTTAGGCATTAGAAGCGACTAT TTTAGATGGTGTGGTGGAGTTATGGGAAAATACGCAGCTGGTGGAGAATTGAAGCCTCCA ACAACTGCTTACAGCCGAGGAGCTGGTAAGCACCCACAACTCATGCCATCCACCCCAAGA TGGGCTGTTGCCAATGGAGCTGGAGTTATTTTAAGTGTCTGTGATGAGGAAGTAGCTCGT TATGAGACAGCAAACTTAACCGCGGCAGCTGTTCCCGCCCTTCTGCTACCTCCACCGACA ACACCCTTGGATGAGCATTTGGTGGCAGGGCTACCCCCTCTTGAGCCATACGCTCGCTTG TTTCATAGATACTATGCAATTGCCACACCAAGTGCTACACAAAGATTGCTTTTTGGTCTT CTTGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTTCAGCTTGTTGAA CTCCTTCGGGCAGCTGAAGATTATGCTACTGGCATGCGGCTTCCAAAAAATTGGTTGCAT CTTCATTTCTTGCGTGCGATTGGAACTGCAATGTCTATGAGGGCTGGTATTGCTGCCGAT ACAGCTGCTGCGTTGCTTTTTCGCATACTATCCCAACCAACGTTGCTTTTTCCTCCACTA AGGCATGCTGAAGGAGTTGAAGTGCAACATGAACCACTGGGTGGCTATGTATCATCATAC AAAAGACAGCTGGAAGTTCCTGCATCTGAAACCACAATTGATGCCACTGCACAAGGCATT GCTTCCTTGCTGTGTGCTCATGGTCCTGATGTTGAGTGGAGAATATGTACCATCTGGGAA GCTGCCTATGGTTTGTTACCTCTGAATTCATCAGCAGTTGATTTGCCCGAAATCGTTGTA GCTGCTCCGCTTCAGCCACCTACTTTGTCATGGAGCCTATACTTGCCACTGTTGAAAGTA TTCGAGTATCTACCTCGTGGAAGTCCATCTGAAGCATGCCTTATGAGAATATTTGTGGCA ACAGTTGAAGCTATACTCAGAAGAACTTTCCCTTCGGAAACCTCTGAATCATCTAAAAGA CCAAGAAGTCAATCCAAGAACCTTGCTGTTGCTGAACTCCGTACAATGATACATTCACTC TTTGTTGAATCATGTGCTTCAATGAACCTTGCTTCCCGGTTGTTGTTTGTTGTATTAACT GTTTGCGTCAGTCATCAAGCTTTGCCAGGGGGCAGCAAAAGACCAACGGGTAGTGAAAAC CATTCTTCTGAGGAGGCCACTGAGGACCCAAGATTAACCAATGGAAGAAATAAGGTCAAG AAGAAACAAGGGCCTGTTGGTACATTTGACTCGTATGTGCTGGCTGCTGTTTGTGCCTTA TCTTGTGAGCTTCAGCTGTTCCCTATCCTTTGCAAGAGTGCAACAAACTCAAAAGTAAAA GACTCTATAAAGATCCTGAAGCCTGGAAAAAACAATGGGATCAGTAATGAGCTACAGAAT AGCATTAGCTCAGCAATTCTCCATACTCGTAGAATTCTTGGCATCCTGGAAGCTCTTTTC TCCTTGAAGCCATCATCAGTTGGTACCTCCTGGAACTATAGTTCAAATGAGATAGTTGCA GCGGCTATGGTTGCCGCTCATGTTTCTGAGTTATTTCGCCGGTCGAGGCCATGCCTAAAT GCACTATCTTCACTGAAGCGATGTAAGTGGGATGCTGAGATTTCTACCAGGGCATCATCC CTTTACCATTTGATCGATTTGCATGGTAAAACTGTGTCCTCCATCGTGAACAAAGCTGAG CCTCTAGAAGCTCACCTGACTTTTACATCAGTAAAGAGAGATGGTCAACAACACATTGAG GAAAACAGCACCAGCTCATCGGGTAATGGCAACTTGGAAAAGAAGAATGCTTCAGCCTCA CACATGAAAAATGGTTTTTCAAGACCACTCTTGAAATGCTCAGAAGAGGCTAGGCGAAAT GGTAATGTTGCAAGTACATCCGGGAAAGTTCCTGCAACTTTACAGGCTGAAGCATCTGAT TTGGCTAACTTCCTTACCATGGATAGAAATGGGGGTTATCGAGGCTCTCAGACTCTCCTA AGTTCTGTTATCTCAGAAAAACAGGAATTATGCTTCTCTGTTGTCTCATTGCTCTGGCA
Protein Sequence (692 aa)
>BART1_0-u18690.012 692 150831_barley_pseudomolecules MGKYAAGGELKPPTTAYSRGAGKHPQLMPSTPRWAVANGAGVILSVCDEEVARYETANLT AAAVPALLLPPPTTPLDEHLVAGLPPLEPYARLFHRYYAIATPSATQRLLFGLLEAPPSW APDALDAAVQLVELLRAAEDYATGMRLPKNWLHLHFLRAIGTAMSMRAGIAADTAAALLF RILSQPTLLFPPLRHAEGVEVQHEPLGGYVSSYKRQLEVPASETTIDATAQGIASLLCAH GPDVEWRICTIWEAAYGLLPLNSSAVDLPEIVVAAPLQPPTLSWSLYLPLLKVFEYLPRG SPSEACLMRIFVATVEAILRRTFPSETSESSKRPRSQSKNLAVAELRTMIHSLFVESCAS MNLASRLLFVVLTVCVSHQALPGGSKRPTGSENHSSEEATEDPRLTNGRNKVKKKQGPVG TFDSYVLAAVCALSCELQLFPILCKSATNSKVKDSIKILKPGKNNGISNELQNSISSAIL HTRRILGILEALFSLKPSSVGTSWNYSSNEIVAAAMVAAHVSELFRRSRPCLNALSSLKR CKWDAEISTRASSLYHLIDLHGKTVSSIVNKAEPLEAHLTFTSVKRDGQQHIEENSTSSS GNGNLEKKNASASHMKNGFSRPLLKCSEEARRNGNVASTSGKVPATLQAEASDLANFLTM DRNGGYRGSQTLLSSVISEKQELCFSVVSLLW