- Transcript BART1_0-u25435.001
- Transcript IDBART1_0-u25435.001
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681728097 | 681727258 | - |
| chr3H | 2 | 681728628 | 681728591 | - |
| chr3H | 3 | 681728830 | 681728758 | - |
| chr3H | 4 | 681729054 | 681728926 | - |
| chr3H | 5 | 681729385 | 681729308 | - |
| chr3H | 6 | 681729697 | 681729472 | - |
| chr3H | 7 | 681730030 | 681729865 | - |
| chr3H | 8 | 681730185 | 681730105 | - |
| chr3H | 9 | 681730317 | 681730271 | - |
| chr3H | 10 | 681730783 | 681730695 | - |
| chr3H | 11 | 681731206 | 681731096 | - |
| chr3H | 12 | 681733477 | 681732395 | - |
| chr3H | 13 | 681734115 | 681733967 | - |
| chr3H | 14 | 681734573 | 681734396 | - |
| chr3H | 15 | 681735055 | 681734894 | - |
| chr3H | 16 | 681735390 | 681735231 | - |
| chr3H | 17 | 681735974 | 681735866 | - |
| chr3H | 18 | 681736144 | 681736050 | - |
| chr3H | 19 | 681736609 | 681736477 | - |
| chr3H | 20 | 681737010 | 681736938 | - |
| chr3H | 21 | 681737704 | 681737606 | - |
| chr3H | 22 | 681737948 | 681737800 | - |
| chr3H | 23 | 681738516 | 681738306 | - |
| chr3H | 24 | 681738721 | 681738587 | - |
| chr3H | 25 | 681738879 | 681738807 | - |
| chr3H | 26 | 681739133 | 681738961 | - |
| chr3H | 27 | 681740009 | 681739754 | - |
| chr3H | 28 | 681747348 | 681747285 | - |
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 | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0.347519 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0.34097 |
| morex | INF2 | 0.323942 | 0.565521 | 0.461045 |
| morex | CAR5 | 0 | 0 | 0.157854 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0.0938941 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g72880.1 | +3 | 0.0 | 1188 | 621/727 (85%) | protein|DNA mismatch repair protein Mlh1, putative, expressed |
| TAIR PP10 | AT4G09140 @ ARAPORT AT4G09140.1 @ TAIR |
+3 | 0.0 | 912 | 483/720 (67%) | Symbols: ATMLH1, MLH1 | MUTL-homologue 1 | chr4:5817107-5821035 REVERSE LENGTH=737 |
| BRACH PP3 | Bradi2g61370.1.p | +3 | 0.0 | 1283 | 664/726 (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 (5180 bp)
>BART1_0-u25435.001 5180 150831_barley_pseudomolecules GGCGGAACCTCCGCCGTCCTCCCGCCCCCCCCCCCCCACTCCCCATTCCCCACCTCCTCC GCCCGGTCCCCAGACGCGGCGCGGCGGGCATGGAGGTCGACGACGCGGCGCCGCGCGGCG GGGAGCCGCCCCGCATCCGGCGGCTGGAGGAGTCGGTGGTGAACCGCATCGCCGCGGGGG AGGTGATCCAGCGGCCCTCGTCGGCGGTGAAGGAACTCGTCGAGAACAGCATCGACGCCG GCTCCTCCACCATCTCCGTCACCGTCAAGGACGGGGGCCTCAAGCTCATCCAGGTCTCGG ACGACGGCCACGGCATCCGGTGTGAGGACTTGCCAATATTGTGTGAGAGGCATACTACCT CAAAGTTGTCTGCATATGAGGATCTACAGACAATAAAGTCCATGGGGTTCAGAGGGGAGG CTTTGGCCAGTATGACTTATGTTGGCCATGTTACCGTGACAACAATAACAGAAGGCCAAC TGCATGGCTACAGAGTTTCTTATAGGGATGGAGTAATGGAGAATGACCCAAAGCCCTGTG CTGCGGTTAAAGGAACTCAAATCATGGTTGAAAATTTATTCTACAATATGGTAGCTCGTA GGAAAACACTGCAGAACTCCAATGATGACTATCCAAAGATAGTGGACTTCATCAGTCGGT TTGCAGTCCATCACATCAATGTGAACTTCTCTTGCAGAAAGCATGGAGCCAATAGAGCAG ATGTTCACAGTGGGAGCACATCTTCAAGGCTAGATGCTATCAGGAATGTCTATGGGGCTT CGGTTGTTCGTGATCTGATGGAAATACAGGTTTCAGATGAGAATGCTGTAGATGAAATAT TCAAGATGGATGGTTTCATCTCAAATGCAAATTATGTGGCAAAGAAGACTACTATGATTC TTTTCATAAATGATCGACTTGTAGATTGCACTTCTTTGAAAAGAGCTACTGAATTTGTGT ACTCTGCAATACTGCCTCAAGCATCGAAACCCTTCATATACATGTCCATCAATCTTCCAC CAGAACACGTGGATGTCAATATACATCCAACCAAAAAGGAGGTTAGCCTCTTAAATCAAG AGCGTATTATTGAAAAAATTAAAGATGCCATCGAGGAAAAACTGGTGAACTGTAATAACA CAAGGATATTCCAAACTCAGGCACTAAACCCTTCAGCACTTACTCAAGCTAACACACGAA AGGACATGGGTACCGAGGTCAGCACGCCTACTGGAGAAAAATCTCAAAAGATTCCTGTGA GCCAAATTGTCAGAACAGATCCTCGCGATCCATCTGGAAGGTTGCACACCTATTGGCAAG GTCAAACTTCAAATCTTGAAAAGAAGTCTGACCTTGTTGCCGTAAGAAATATTGTAAGAT CAAGAAGGAATCCAAAAGATGCTGGTGATTTGTCCAGTCGCCATGAGCTTGTTACAGAAA TAGATTCTAACTTACATCCTGGCCTTTTCGATATTGTTAAGAATTGCACATATGTTGGAG TTGCGGATGAAGTTTTCGCTTTGATACAACACAATACCCTCTTATACCTTGTCAATGTGG TAAATGTTAGCAAAGAACTCATGTACCAACAAGCCTTGTGCCGTTTTGGGAACTTCAATG CTATAAAACTCAGTGAACCAGCTCCACTTCTGGAGTTGCTGAGAATGGCACTGAAAGATG ACGAGTCAATGAGTGATGTAAATGAGAAGGAGAAACTAGAAATTGCAGAAGTGAACACTG AGATACTGAAAGAAAATGCTGAGATGATTAATGAGTACTTCTCTATTCACATTGATCAAG GTGGCAACCTGACCAGACTTCCTGTTGTACTTGATCAGTACACTCCTGATATGGATCGCC TTCCAGAGTTCATGTTGAGTCTAGGAAATGATATTACCTGGGACGTTGAGAAAGAGTGCT TCAGAACGGCAGCAGCTGCTATCGGAAACTTCTATGCGCTTCATCCTCCCATCCTTCCAA ATCCATCTGGCAAAGGCATTCAGTTATACAAGAAAAATAAAGATTGCATGGGAAGTGCTG AACAGGCTGATAACAATTTACCAAGTACAGATGAAGATGACATCGATCAAGAGCTGCTTG CGGAAGCAGAGGCAGCATGGGCTCAACGTGAGTGGACCATCCAGCACGTCTTGTTCCCGT CGATGCGACTTTTCCTCAAGCCCCCTAAGTCGATGGCAACTGATGGAACGTTTGTCCAGA TTGCTTCTCTAGACAAGCTTTACAAGATCTTCGAGAGATGCTAGCCGACAAGCGGCATGT CGAGAAGGAAGGGAAGAGCGCGACGCGACCGACGCCCTTGCCGGTTCCTTCCGGGACGTG TGTATATAATGCGGTGTCACTGTTTTTTCCCCCCTTTTTCCGATAGGGCTGTAAATATTT TTGAAGGACGAGCAAAGTTTGCTGGGCTCCAGCTCAGCCCTGGAATTGAATGGCAAATGC ACGAATGATTTGGCTCTGCTACGCAATGCTGTCATTGTTGTTTCCCTCTAATGACCCCGC TGGCAGATATGTCATGCCCTCTTACAACGATCGCCCAAAAAAAGATTTTACAAAATCAAA CGCATGCCTTTTTTTCTTTTCTTTTTCTGATCCGAAGTCAAACAAATTCGAACCGGCGTC TTTCGAGATTTAAAATCAAGCCACGTGTCCCTGCAGGTTGGCCCGGAGAGCTGCTTGCTT CCCTCTGTTCCTAAATGTAAGATCTTTTAGAAATTTCGATATAGACTACACACGGATGTA TATAGACATATTTTAAAAATACACATTCTCTCATTTTACTCCGTAGGTACGTAGTCTATA TTTTGAAATCTATAAAAGGTCCTATACTCCCTCAGGAAACATAATATATGACGTTTTGAC AGTACTAAAATTCTGCCTCCCTCGTCACTTCAAAAAAAATAAAAAAAATTCTGCCTCCCT TGTTGCACACGAGAGAAGACTGGACCGACACGTGTCCCTGCGGGTGGGCCCGCAGAGAAA CCCCACGCCAAAGCAAGTTACCACGCCCCCGTCCTCCTTCACCCCATCCATATCCCCCCC GACCAAAACCCTAGCTCGCGCTCCAGACCCCGCACGCCCGCCGCCGCCGCGGGGAGACGG ACGACGATGGCGAAGCCCCGCCGCGGCCGCTCAGGCTCGCGGTCCTCGTCGGGCTCCTCC TCCCGCTCCGCCTCCTCGGGCTCCTCCCGCTCGCGCTCGCGCTCCCGCTCCCGCTCCCTC TCCTCCTCCTCGTCCTCGCCCGCCCGCACCCGGGGCCGCTCCCCTCCCGCCGCCAAGCGC AGTTCACCTGGAGCAAAGAAAGGGCGATCACCTTCACCCCCTCTCAAAAAAGGGTCACCA TCAAGGAAAGGCCGCTCAGCATCTCCCCCACCGAAGAAAGCTTCACCTCCTAGGAAAGCA TCTCCCCCTCCTCAGTCGGTTGTTCTACACGTTGATCATCTATCCAGAAATGTGAATGAG GCTCATTTGAAGGAGATATTTGGAAGTTATGGCGAAGTGGTGAATGTGGAGCTATCAATG GACAAATTTGTTAATCTCCCTCGTGGGTATGGATACATCGAGTTCAAGAAGAGGACTGAT GCTGAGAAGGCTCTTCTTTACATGGATGGTGGGCAAATTGATGGAAATGTTGTCAAGCTG AAGTTCACACTGCCACCACGCCAAAAGGCTTCTTCACCTTTAAAGCCACCTCCTCCTCCC CCCAGAAGAGATGCTCCTCAGAATGATAAAGTTGCTATTGGTGCTGAAAAGGATGCGCAG CAGCGCCCTGGGGGATCAGCATCTCCACGAAAGAAGCCACCTTCTCCTCCGCGAAAGAGG TCTCCTCCAAATAGAAGGGCTGAGTCACCCCGGCGTCCACCCAATCCATCTCCAAGGCGT CGTGCTGATTCTCCTATTCGTCGTCGACCAGATCTTTCCCCTGTTAGGCGTGGTGACAGA AGACCAGGATCTCCAATTAGAAGACGTTCCCCTTCACCTAGAAGGCATAGGTCACCAATG CGGAGGGGTCGTGGCAGCTTATCACCTCGCAGACGCTCCCCGGGGCCTCCTAGGCGCTCA CCTGGGCCTCCCAGACGGCGGTCACCACCACCAAGGAGATTGAGGAGTCCTCCAAGAAGG CCACCACCACCACCTCCCCGTCGTCACAGTCGCTCCCCTCCTCCTCGCCGCCCTCTTCAC TCCCGCTCTAGATCGATTTCTCCTCGCAGGGGGCGAGGACCACCATTGAGGCGTGGAAGG TCGGATTCATCATATTCTGCATCACCCAGTCCTCCAAGAAAGGGACCAAGAAGGGTGTCA AGGAGCCGCAGCCCTAGAAGGCCTCCCAGAGGAAGGAGCGGATCTAGCGACAGCGGGAGC AGCAGCTCTTCCCCAACCCCAAGGCGCAGGTAGAAAGAAAGAAACTCGTAACGTGTGTTG TTCCTGGCAGGTAAAAAAACTTTCTCTTCTCTCTCGACTGTCACCATGGATTGCGTCTGC ATGCATGTATCTTGCTGTGAGCTCAAGTCAAGAGGCGATCGATGTGAGGGGCGGGACGAT GCGATGAGGTGCTCGGCATGCCTCCCTGGCATTTGTACTCACAAGACAGACTGTATGATG ACGACTTGTGTTGATGATTTGCCTGTACTGGAACTATTTTTTTATAATTCTGCGGTTGTT TGTCAACTACAAATCTGGCTAGTATTATTATCCTGTTGCCACTCTTGAGAATTAATGAGT TGTTTACTAGTTGATTGATGGATTGGCTCGTGGAGTTGATTTTTCTTTAACTGTAGGTTT TGATTGTTTTGCATTTTGAACGTGCTTGGATGAATGTGCGTGAACCTGTTGCTCTGGCAT GTCCGTCTCTATGAGCCCTGTTTGGTTTGGTGCTGGCGTATCTGTTTTGTTAGCGTCGAG GTTGAGCAACAGTCCTTGCCCCTGGCCATAGCAATCCCGGTGTGCTGGGATGCCACTGAA ATGTTTAGGGATAGACAAAGCTGGTCATGCTGCTGACATGTCTAAGCTGCGGATATGCTC TTAGAGCCTGTTCTGCAATCCACAAGAATGACACTTTGACGACAATGATAAGATGCGCTG CGGGGTGAGCAAAGCTGACTTTTCGGTGGTGCTCTGGCCGCTCCAGGAGAGGAGCGGAGC ATAGAGCTGCCGAACAGGCT
Protein Sequence (724 aa)
>BART1_0-u25435.001 724 150831_barley_pseudomolecules MEVDDAAPRGGEPPRIRRLEESVVNRIAAGEVIQRPSSAVKELVENSIDAGSSTISVTVK DGGLKLIQVSDDGHGIRCEDLPILCERHTTSKLSAYEDLQTIKSMGFRGEALASMTYVGH VTVTTITEGQLHGYRVSYRDGVMENDPKPCAAVKGTQIMVENLFYNMVARRKTLQNSNDD YPKIVDFISRFAVHHINVNFSCRKHGANRADVHSGSTSSRLDAIRNVYGASVVRDLMEIQ VSDENAVDEIFKMDGFISNANYVAKKTTMILFINDRLVDCTSLKRATEFVYSAILPQASK PFIYMSINLPPEHVDVNIHPTKKEVSLLNQERIIEKIKDAIEEKLVNCNNTRIFQTQALN PSALTQANTRKDMGTEVSTPTGEKSQKIPVSQIVRTDPRDPSGRLHTYWQGQTSNLEKKS DLVAVRNIVRSRRNPKDAGDLSSRHELVTEIDSNLHPGLFDIVKNCTYVGVADEVFALIQ HNTLLYLVNVVNVSKELMYQQALCRFGNFNAIKLSEPAPLLELLRMALKDDESMSDVNEK EKLEIAEVNTEILKENAEMINEYFSIHIDQGGNLTRLPVVLDQYTPDMDRLPEFMLSLGN DITWDVEKECFRTAAAAIGNFYALHPPILPNPSGKGIQLYKKNKDCMGSAEQADNNLPST DEDDIDQELLAEAEAAWAQREWTIQHVLFPSMRLFLKPPKSMATDGTFVQIASLDKLYKI FERC