- Transcript BART1_0-u18690.010
- Transcript IDBART1_0-u18690.010
- Gene IDBART1_0-u18690
Barley RTD
Exon Structure of BART1_0-u18690.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 67423171 | 67421728 | - |
| 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 | 67427705 | 67427601 | - |
| chr3H | 11 | 67428426 | 67427855 | - |
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 | 0.602457 | 0.000856711 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0.729572 | 0 | 0.00004604 |
| morex | EPI | 0.258879 | 0.000579547 | 0.00000000501746 |
| morex | ROO | 1.14691 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0.0837548 |
| morex | NOD | 0.00000829879 | 0.0000000229959 | 1.65288 |
| morex | RAC | 0.0398261 | 0 | 0 |
| morex | INF1 | 0.267554 | 0.899626 | 3.64646 |
| morex | INF2 | 0 | 0.00000178451 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0.371196 |
| morex | LEM | 0.00000000828604 | 0.0238119 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0.00000000169383 | 0 |
| morex | SEN | 0 | 0.0000000208761 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g08700.6 | +2 | 0.0 | 1460 | 758/858 (88%) | protein|GIGANTEA, putative, expressed |
| TAIR PP10 | AT1G22770 @ ARAPORT AT1G22770.1 @ TAIR |
+2 | 0.0 | 1063 | 587/876 (67%) | Symbols: GI, FB | gigantea protein (GI) | chr1:8062398-8067447 FORWARD LENGTH=1173 |
| BRACH PP3 | Bradi2g05226.1.p | +2 | 0.0 | 1530 | 799/867 (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 (3344 bp)
>BART1_0-u18690.010 3344 150831_barley_pseudomolecules GGGTCTGGGACCAATGATGAAGATGAGTAGATGACTGAGCCCTTGGATCCTGATCCAAGG GTCAGAGTTGGCGATTAGATGTGTTCCTATACTATCTTATTTCCCCAAGCATCTGGAATC ATTCCATTCCATCCCATTCTCAAATCTCAAAGTCCAGGATGGTTCCATTCCAGTCTACTT CATTCCTCAAACCACTAACGGTTTTAGAGTTGAAATCCTTTTTCTGACTCTGTTAAGGGC TGGGAATGTAAACGAGACTTCTTTTTAGAAATATGTTGCCAAGGCTATGCAAAATTTGTT CCATTGGCTGGTTGACCTCCTCTCTTGTCAATTTATGGCAATATTTCTTGTTTTAAAATT TATTAAAATGACATCTATAATAATGTCCCTTTCCTTCTTTCGACTTTCCTTTTGCTATAT TTTGCAATGCAGAGACGTTAAGCGCCTATGGTTGGAACTGGTTGATATGATATCTGGTCA CATTGTGGGATGCAATCCCCCCTTAGTGGGGGGTGATTGAAGAAGTCAACAATAGGAGAA CTTGCATCTTGCTGAAGTTTTCTGGTACTGAGGCTCTTAAACTACCAAGTATGTCAGCGT CAAATGGGAAGTGGATTGATGGACTCCAGTTCTCATCACTGTTCTGGCCCCCGCCACACG ATGCGCAGCAGAAACAGGCACAAATTTTAGCCTATGTTGAGTACTTTGGTCAGTTCACAT CTGACAGCGAGCAATTCCCGGAGGATGTAGCTCAGACCCCTCCATCTTTCTTGCTTGTGT GCAGCTAATTCAAACTTGCTATCCATCAAAAGAAAAGCGGTTGGTAGATGAAGTATTAGC AACTTTTGTTCTCCATCACCCCGAGCATGGTCATGCAGTTGTACATCCAATTCTTTCACG CATCATAGACGGGACACTGAGTTATGATAGTCATGGTTCCCCATTCAATTCCTTCATCTC CTTATTTACCCAAAGTTCTGAGAAAGAGTACTCAGAGCAGTGGGCCTTGGCCTGTGGAGA GATTCTTAGAGTTCTAACTCACTACAACAGGCCAATCTTTAAAGTTGCAGACTGTAACAA CACCTCTGACCAGGCTACAACAAGTTGTTCTGCACAGGAGAAAGCTAATTACTCTCCAGG AAATGAACCTGAACGGAAGCCATTGAGGCCATTATCTCCTTGGATCACAGATATTTTGCT AACTGCACCTTTAGGCATTAGAAGCGACTATTTTAGATGGTGTGGTGGAGTTATGGGAAA ATACGCAGCTGGTGGAGAATTGAAGCCTCCAACAACTGCTTACAGCCGAGGAGCTGGTAA GCACCCACAACTCATGCCATCCACCCCAAGATGGGCTGTTGCCAATGGAGCTGGAGTTAT TTTAAGTGTCTGTGATGAGGAAGTAGCTCGTTATGAGACAGCAAACTTAACCGCGGCAGC TGTTCCCGCCCTTCTGCTACCTCCACCGACAACACCCTTGGATGAGCATTTGGTGGCAGG GCTACCCCCTCTTGAGCCATACGCTCGCTTGTTTCATAGATACTATGCAATTGCCACACC AAGTGCTACACAAAGATTGCTTTTTGGTCTTCTTGAAGCACCACCATCATGGGCTCCAGA TGCACTTGATGCAGCAGTTCAGCTTGTTGAACTCCTTCGGGCAGCTGAAGATTATGCTAC TGGCATGCGGCTTCCAAAAAATTGGTTGCATCTTCATTTCTTGCGTGCGATTGGAACTGC AATGTCTATGAGGGCTGGTATTGCTGCCGATACAGCTGCTGCGTTGCTTTTTCGCATACT ATCCCAACCAACGTTGCTTTTTCCTCCACTAAGGCATGCTGAAGGAGTTGAAGTGCAACA TGAACCACTGGGTGGCTATGTATCATCATACAAAAGACAGCTGGAAGTTCCTGCATCTGA AACCACAATTGATGCCACTGCACAAGGCATTGCTTCCTTGCTGTGTGCTCATGGTCCTGA TGTTGAGTGGAGAATATGTACCATCTGGGAAGCTGCCTATGGTTTGTTACCTCTGAATTC ATCAGCAGTTGATTTGCCCGAAATCGTTGTAGCTGCTCCGCTTCAGCCACCTACTTTGTC ATGGAGCCTATACTTGCCACTGTTGAAAGTATTCGAGTATCTACCTCGTGGAAGTCCATC TGAAGCATGCCTTATGAGAATATTTGTGGCAACAGTTGAAGCTATACTCAGAAGAACTTT CCCTTCGGAAACCTCTGAATCATCTAAAAGACCAAGAAGTCAATCCAAGAACCTTGCTGT TGCTGAACTCCGTACAATGATACATTCACTCTTTGTTGAATCATGTGCTTCAATGAACCT TGCTTCCCGGTTGTTGTTTGTTGTATTAACTGTTTGCGTCAGTCATCAAGCTTTGCCAGG GGGCAGCAAAAGACCAACGGGTAGTGAAAACCATTCTTCTGAGGAGGCCACTGAGGACCC AAGATTAACCAATGGAAGAAATAAGGTCAAGAAGAAACAAGGGCCTGTTGGTACATTTGA CTCGTATGTGCTGGCTGCTGTTTGTGCCTTATCTTGTGAGCTTCAGCTGTTCCCTATCCT TTGCAAGAGTGCAACAAACTCAAAAGTAAAAGACTCTATAAAGATCCTGAAGCCTGGAAA AAACAATGGGATCAGTAATGAGCTACAGAATAGCATTAGCTCAGCAATTCTCCATACTCG TAGAATTCTTGGCATCCTGGAAGCTCTTTTCTCCTTGAAGCCATCATCAGTTGGTACCTC CTGGAACTATAGTTCAAATGAGATAGTTGCAGCGGCTATGGTTGCCGCTCATGTTTCTGA GTTATTTCGCCGGTCGAGGCCATGCCTAAATGCACTATCTTCACTGAAGCGATGTAAGTG GGATGCTGAGATTTCTACCAGGGCATCATCCCTTTACCATTTGATCGATTTGCATGGTAA AACTGTGTCCTCCATCGTGAACAAAGCTGAGCCTCTAGAAGCTCACCTGACTTTTACATC AGTAAAGAGAGATGGTCAACAACACATTGAGGAAAACAGCACCAGCTCATCGGGTAATGG CAACTTGGAAAAGAAGAATGCTTCAGCCTCACACATGAAAAATGGTTTTTCAAGACCACT CTTGAAATGCTCAGAAGAGGCTAGGCGAAATGGTAATGTTGCAAGTACATCCGGGAAAGT TCCTGCAACTTTACAGGCTGAAGCATCTGATTTGGCTAACTTCCTTACCATGGATAGAAA TGGGGGTTATCGAGGCTCTCAGACTCTCCTAAGTTCTGTTATCTCAGAAAAACAGGAATT ATGCTTCTCTGTTGTCTCATTGCTCTGGCATAAGCTTGCATGCN
Protein Sequence (697 aa)
>BART1_0-u18690.010 697 150831_barley_pseudomolecules MGKYAAGGELKPPTTAYSRGAGKHPQLMPSTPRWAVANGAGVILSVCDEEVARYETANLT AAAVPALLLPPPTTPLDEHLVAGLPPLEPYARLFHRYYAIATPSATQRLLFGLLEAPPSW APDALDAAVQLVELLRAAEDYATGMRLPKNWLHLHFLRAIGTAMSMRAGIAADTAAALLF RILSQPTLLFPPLRHAEGVEVQHEPLGGYVSSYKRQLEVPASETTIDATAQGIASLLCAH GPDVEWRICTIWEAAYGLLPLNSSAVDLPEIVVAAPLQPPTLSWSLYLPLLKVFEYLPRG SPSEACLMRIFVATVEAILRRTFPSETSESSKRPRSQSKNLAVAELRTMIHSLFVESCAS MNLASRLLFVVLTVCVSHQALPGGSKRPTGSENHSSEEATEDPRLTNGRNKVKKKQGPVG TFDSYVLAAVCALSCELQLFPILCKSATNSKVKDSIKILKPGKNNGISNELQNSISSAIL HTRRILGILEALFSLKPSSVGTSWNYSSNEIVAAAMVAAHVSELFRRSRPCLNALSSLKR CKWDAEISTRASSLYHLIDLHGKTVSSIVNKAEPLEAHLTFTSVKRDGQQHIEENSTSSS GNGNLEKKNASASHMKNGFSRPLLKCSEEARRNGNVASTSGKVPATLQAEASDLANFLTM DRNGGYRGSQTLLSSVISEKQELCFSVVSLLWHKLAC