- Transcript BART1_0-u25435.030
- Transcript IDBART1_0-u25435.030
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.030
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681736132 | 681736047 | - |
| chr3H | 2 | 681736609 | 681736477 | - |
| chr3H | 3 | 681737010 | 681736938 | - |
| chr3H | 4 | 681737704 | 681737606 | - |
| chr3H | 5 | 681737948 | 681737800 | - |
| chr3H | 6 | 681738516 | 681738306 | - |
| chr3H | 7 | 681738721 | 681738587 | - |
| chr3H | 8 | 681738879 | 681738807 | - |
| chr3H | 9 | 681739133 | 681738961 | - |
| chr3H | 10 | 681740014 | 681739754 | - |
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 | 0.440864 | 3.99751 |
| morex | ETI | 0.273578 | 1.99166 | 5.07855 |
| morex | LEA | 4.90759 | 2.05757 | 0.11026 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 2.41849 | 2.71087 | 0.963268 |
| morex | ROO2 | 0.016389 | 1.65153 | 3.32907 |
| morex | NOD | 1.36951 | 0.166906 | 0.154862 |
| morex | RAC | 4.69023 | 2.94371 | 2.8007 |
| morex | INF1 | 22.1196 | 11.3285 | 4.29976 |
| morex | INF2 | 28.2761 | 19.8711 | 17.5597 |
| morex | CAR5 | 10.5315 | 5.16246 | 9.81501 |
| morex | CAR15 | 0.637724 | 2.91446 | 1.39424 |
| morex | LEM | 2.37092 | 2.5655 | 2.43393 |
| morex | LOD | 0.00387928 | 0.0000244759 | 1.30321 |
| morex | PAL | 0.456904 | 2.21225 | 2.64058 |
| morex | SEN | 0 | 1.88724 | 0.0000000241654 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g72880.1 | +1 | 0.0 | 776 | 390/460 (85%) | protein|DNA mismatch repair protein Mlh1, putative, expressed |
| TAIR PP10 | AT4G09140 @ ARAPORT AT4G09140.1 @ TAIR |
+1 | 0.0 | 601 | 305/452 (67%) | Symbols: ATMLH1, MLH1 | MUTL-homologue 1 | chr4:5817107-5821035 REVERSE LENGTH=737 |
| BRACH PP3 | Bradi2g61370.1.p | +1 | 0.0 | 832 | 418/459 (91%) | pacid=32771966 transcript=Bradi2g61370.1 locus=Bradi2g61370 ID=Bradi2g61370.1.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 (1393 bp)
>BART1_0-u25435.030 1393 150831_barley_pseudomolecules NNNNNGGTCCCCAGACGCGGCGCGGCGGGCATGGAGGTCGACGACGCGGCGCCGCGCGGC GGGGAGCCGCCCCGCATCCGGCGGCTGGAGGAGTCGGTGGTGAACCGCATCGCCGCGGGG GAGGTGATCCAGCGGCCCTCGTCGGCGGTGAAGGAACTCGTCGAGAACAGCATCGACGCC GGCTCCTCCACCATCTCCGTCACCGTCAAGGACGGGGGCCTCAAGCTCATCCAGGTCTCG GACGACGGCCACGGCATCCGGTGTGAGGACTTGCCAATATTGTGTGAGAGGCATACTACC TCAAAGTTGTCTGCATATGAGGATCTACAGACAATAAAGTCCATGGGGTTCAGAGGGGAG GCTTTGGCCAGTATGACTTATGTTGGCCATGTTACCGTGACAACAATAACAGAAGGCCAA CTGCATGGCTACAGAGTTTCTTATAGGGATGGAGTAATGGAGAATGACCCAAAGCCCTGT GCTGCGGTTAAAGGAACTCAAATCATGGTTGAAAATTTATTCTACAATATGGTAGCTCGT AGGAAAACACTGCAGAACTCCAATGATGACTATCCAAAGATAGTGGACTTCATCAGTCGG TTTGCAGTCCATCACATCAATGTGAACTTCTCTTGCAGAAAGCATGGAGCCAATAGAGCA GATGTTCACAGTGGGAGCACATCTTCAAGGCTAGATGCTATCAGGAATGTCTATGGGGCT TCGGTTGTTCGTGATCTGATGGAAATACAGGTTTCAGATGAGAATGCTGTAGATGAAATA TTCAAGATGGATGGTTTCATCTCAAATGCAAATTATGTGGCAAAGAAGACTACTATGATT CTTTTCATAAATGATCGACTTGTAGATTGCACTTCTTTGAAAAGAGCTACTGAATTTGTG TACTCTGCAATACTGCCTCAAGCATCGAAACCCTTCATATACATGTCCATCAATCTTCCA CCAGAACACGTGGATGTCAATATACATCCAACCAAAAAGGAGGTTAGCCTCTTAAATCAA GAGCGTATTATTGAAAAAATTAAAGATGCCATCGAGGAAAAACTGGTGAACTGTAATAAC ACAAGGATATTCCAAACTCAGGCACTAAACCCTTCAGCACTTACTCAAGCTAACACACGA AAGGACATGGGTACCGAGGTCAGCACGCCTACTGGAGAAAAATCTCAAAAGATTCCTGTG AGCCAAATTGTCAGAACAGATCCTCGCGATCCATCTGGAAGGTTGCACACCTATTGGCAA GGTCAAACTTCAAATCTTGAAAAGAAGTCTGACCTTGTTGCCGTAAGATCAAGAAGGAAT CCAAAAGATGCTGGTGATTTGTCCAGTCGCCATGAGCTTGTTACAGAAATAGATTCTAAC TTACATCCTGGTG
Protein Sequence (454 aa)
>BART1_0-u25435.030 454 150831_barley_pseudomolecules MEVDDAAPRGGEPPRIRRLEESVVNRIAAGEVIQRPSSAVKELVENSIDAGSSTISVTVK DGGLKLIQVSDDGHGIRCEDLPILCERHTTSKLSAYEDLQTIKSMGFRGEALASMTYVGH VTVTTITEGQLHGYRVSYRDGVMENDPKPCAAVKGTQIMVENLFYNMVARRKTLQNSNDD YPKIVDFISRFAVHHINVNFSCRKHGANRADVHSGSTSSRLDAIRNVYGASVVRDLMEIQ VSDENAVDEIFKMDGFISNANYVAKKTTMILFINDRLVDCTSLKRATEFVYSAILPQASK PFIYMSINLPPEHVDVNIHPTKKEVSLLNQERIIEKIKDAIEEKLVNCNNTRIFQTQALN PSALTQANTRKDMGTEVSTPTGEKSQKIPVSQIVRTDPRDPSGRLHTYWQGQTSNLEKKS DLVAVRSRRNPKDAGDLSSRHELVTEIDSNLHPG