- Transcript BART1_0-u18690.003
- Transcript IDBART1_0-u18690.003
- Gene IDBART1_0-u18690
Barley RTD
Exon Structure of BART1_0-u18690.003
| 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 | 67427855 | - |
| chr3H | 12 | 67430167 | 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 | 8.07575 | 45.1946 | 37.6792 |
| morex | ETI | 22.4556 | 28.3676 | 37.1414 |
| morex | LEA | 41.5491 | 42.0362 | 41.1317 |
| morex | EPI | 37.1075 | 51.5837 | 49.6648 |
| morex | ROO | 63.0071 | 47.1008 | 17.8775 |
| morex | ROO2 | 28.371 | 22.6844 | 31.9279 |
| morex | NOD | 9.3214 | 8.01865 | 8.81654 |
| morex | RAC | 47.4656 | 57.1493 | 59.9034 |
| morex | INF1 | 40.3015 | 35.8467 | 29.8566 |
| morex | INF2 | 74.2753 | 68.1402 | 58.677 |
| morex | CAR5 | 64.2741 | 69.0503 | 85.3051 |
| morex | CAR15 | 19.5737 | 19.1137 | 19.6751 |
| morex | LEM | 36.106 | 39.986 | 57.8448 |
| morex | LOD | 76.3618 | 32.5906 | 37.5805 |
| morex | PAL | 57.9989 | 60.7097 | 46.6078 |
| morex | SEN | 54.5606 | 78.8461 | 46.4366 |
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 | 1567 | 807/912 (88%) | protein|GIGANTEA, putative, expressed |
| TAIR PP10 | AT1G22770 @ ARAPORT AT1G22770.1 @ TAIR |
+2 | 0.0 | 1144 | 624/929 (67%) | Symbols: GI, FB | gigantea protein (GI) | chr1:8062398-8067447 FORWARD LENGTH=1173 |
| BRACH PP3 | Bradi2g05226.1.p | +2 | 0.0 | 1646 | 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 (3287 bp)
>BART1_0-u18690.003 3287 150831_barley_pseudomolecules CCGAAAATATCAAGGCCATGTCAGCCGCGCCCCCTGGCGATCCCGCCAGCCCCCAGCCGC GCACGCGCGAATAAGTATCTCCGCCCACCCACCGGTCGCCGACCCGCGGGCCCGCCGCCC CCACAGCCCAGGTGTCAGTCACGCAGCGCACCGCGCGGGCTCCACCCCTCGCCCCGCGAG GCGAGTGAAATAACGGAGCCAACGCTACACAGACCACCGCCTACCCCTCCCATTACGGAA AAAATCTTTTTCTCGCCTCTCCTCGCCCCTCACATTTTTCTCTCTCCTCCTCCTCCTCCT CTCTGCCTTCGCCTCTGCCTCAGCCTCGCCCGCCGCGCAATCCCGTCGCCGGCGCCGCCG ATTCGCCGCCCGAGCTCCGTATTGGGGCGCTCCCGACCGAGAGACGTTAAGCGCCTATGG TTGGAACTGGTTGATATGATATCTGGTCACATTGTGGGATGCAATCCCCCCTTAGTGGGG GGTGATTGAAGAAGTCAACAATAGGAGAACTTGCATCTTGCTGAAGTTTTCTGGTACTGA GGCTCTTAAACTACCAAGTATGTCAGCGTCAAATGGGAAGTGGATTGATGGACTCCAGTT CTCATCACTGTTCTGGCCCCCGCCACACGATGCGCAGCAGAAACAGGCACAAATTTTAGC CTATGTTGAGTACTTTGGTCAGTTCACATCTGACAGCGAGCAATTCCCGGAGGATGTAGC TCAGCTAATTCAAACTTGCTATCCATCAAAAGAAAAGCGGTTGGTAGATGAAGTATTAGC 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 ATGCTTCTCTGTTGTCTCATTGCTCTGGCATAAGCTTGCATGCNNNN
Protein Sequence (909 aa)
>BART1_0-u18690.003 909 150831_barley_pseudomolecules MSASNGKWIDGLQFSSLFWPPPHDAQQKQAQILAYVEYFGQFTSDSEQFPEDVAQLIQTC YPSKEKRLVDEVLATFVLHHPEHGHAVVHPILSRIIDGTLSYDSHGSPFNSFISLFTQSS EKEYSEQWALACGEILRVLTHYNRPIFKVADCNNTSDQATTSCSAQEKANYSPGNEPERK PLRPLSPWITDILLTAPLGIRSDYFRWCGGVMGKYAAGGELKPPTTAYSRGAGKHPQLMP STPRWAVANGAGVILSVCDEEVARYETANLTAAAVPALLLPPPTTPLDEHLVAGLPPLEP YARLFHRYYAIATPSATQRLLFGLLEAPPSWAPDALDAAVQLVELLRAAEDYATGMRLPK NWLHLHFLRAIGTAMSMRAGIAADTAAALLFRILSQPTLLFPPLRHAEGVEVQHEPLGGY VSSYKRQLEVPASETTIDATAQGIASLLCAHGPDVEWRICTIWEAAYGLLPLNSSAVDLP EIVVAAPLQPPTLSWSLYLPLLKVFEYLPRGSPSEACLMRIFVATVEAILRRTFPSETSE SSKRPRSQSKNLAVAELRTMIHSLFVESCASMNLASRLLFVVLTVCVSHQALPGGSKRPT GSENHSSEEATEDPRLTNGRNKVKKKQGPVGTFDSYVLAAVCALSCELQLFPILCKSATN SKVKDSIKILKPGKNNGISNELQNSISSAILHTRRILGILEALFSLKPSSVGTSWNYSSN EIVAAAMVAAHVSELFRRSRPCLNALSSLKRCKWDAEISTRASSLYHLIDLHGKTVSSIV NKAEPLEAHLTFTSVKRDGQQHIEENSTSSSGNGNLEKKNASASHMKNGFSRPLLKCSEE ARRNGNVASTSGKVPATLQAEASDLANFLTMDRNGGYRGSQTLLSSVISEKQELCFSVVS LLWHKLACX