- Transcript BART1_0-u25435.027
- Transcript IDBART1_0-u25435.027
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.027
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681733477 | 681733190 | - |
| chr3H | 2 | 681734115 | 681733967 | - |
| chr3H | 3 | 681734573 | 681734396 | - |
| chr3H | 4 | 681734745 | 681734683 | - |
| chr3H | 5 | 681735055 | 681734894 | - |
| chr3H | 6 | 681735390 | 681735231 | - |
| chr3H | 7 | 681735974 | 681735866 | - |
| chr3H | 8 | 681736144 | 681736050 | - |
| chr3H | 9 | 681736609 | 681736477 | - |
| chr3H | 10 | 681737010 | 681736954 | - |
| chr3H | 11 | 681737704 | 681737606 | - |
| chr3H | 12 | 681737948 | 681737800 | - |
| chr3H | 13 | 681738516 | 681738306 | - |
| chr3H | 14 | 681738721 | 681738587 | - |
| chr3H | 15 | 681738879 | 681738807 | - |
| chr3H | 16 | 681739133 | 681738961 | - |
| chr3H | 17 | 681739951 | 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 | 0 |
| morex | ETI | 0 | 0 | 0.00000516591 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0.0011312 |
| morex | NOD | 0 | 0.00000000502185 | 0 |
| morex | RAC | 0 | 0 | 1.91649 |
| morex | INF1 | 3.08317 | 0 | 6.79338 |
| morex | INF2 | 1.49217 | 3.88492 | 0.00000240677 |
| morex | CAR5 | 0 | 0 | 1.35457 |
| morex | CAR15 | 0 | 0.0837926 | 0.158965 |
| morex | LEM | 0 | 0 | 0.00554748 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0.504392 |
| 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 | +1 | 0.0 | 645 | 323/365 (88%) | protein|DNA mismatch repair protein Mlh1, putative, expressed |
| TAIR PP10 | AT4G09140 @ ARAPORT AT4G09140.1 @ TAIR |
+1 | 0.0 | 537 | 266/367 (72%) | Symbols: ATMLH1, MLH1 | MUTL-homologue 1 | chr4:5817107-5821035 REVERSE LENGTH=737 |
| BRACH PP3 | Bradi2g61370.1.p | +1 | 0.0 | 675 | 339/365 (93%) | 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 (2432 bp)
>BART1_0-u25435.027 2432 150831_barley_pseudomolecules GAGCCGCCCCGCATCCGGCGGCTGGAGGAGTCGGTGGTGAACCGCATCGCCGCGGGGGAG GTGATCCAGCGGCCCTCGTCGGCGGTGAAGGAACTCGTCGAGAACAGCATCGACGCCGGC TCCTCCACCATCTCCGTCACCGTCAAGGACGGGGGCCTCAAGCTCATCCAGGTCTCGGAC GACGGCCACGGCATCCGGTGTGAGGACTTGCCAATATTGTGTGAGAGGCATACTACCTCA AAGTTGTCTGCATATGAGGATCTACAGACAATAAAGTCCATGGGGTTCAGAGGGGAGGCT TTGGCCAGTATGACTTATGTTGGCCATGTTACCGTGACAACAATAACAGAAGGCCAACTG CATGGCTACAGAGTTTCTTATAGGGATGGAGTAATGGAGAATGACCCAAAGCCCTGTGCT GCGGTTAAAGGAACTCAAATCATGGTTGAAAATTTATTCTACAATATGGTAGCTCGTAGG AAAACACTGCAGAACTCCAATGATGACTATCCAAAGATAGTGGACTTCATCAGTCGGTTT GCAGTCCATCACATCAATGTGAACTTCTCTTGCAGAAAGCATGGAGCCAATAGAGCAGAT GTTCACAGTGGGAGCACATCTTCAAGGCTAGATGCTATCAGGAATGTCTATGGGGCTTCG GTTGTTCGTGATCTGATGGAAATACAGGTTTCAGATGAGAATGCTGTAGATGAAATATTC AAGATGGATGGTTTCATCTCAAATGCAAATTATGTGGCAAAGAAGACTACTATGATTCTT TTCATAAATGATCGACTTGTAGATTGCACTTCTTTGAAAAGAGCTACTGAATTTGTGTAC TCTGCAATACTGCCTCAAGCATCGAAACCCTTCATATACATGTCCATCAATCTTCCACCA GAACACGTGGATGTCAATATACATCCAACCAAAAAGGAGGTTAGCCTCTTAAATCAAGAG CGTATTATTGAAAAAATTAAAGATGCCATCGAGGAAAAACTGGTGAACTGTAATAACACA AGGATATTCCAAACTCAGGCACTAAACCCTTCAGCACTTACTCAAGCTAACACACGAAAG GACATGGGTACCGAGGAGAAAAATCTCAAAAGATTCCTGTGAGCCAAATTGTCAGAACAG ATCCTCGCGATCCATCTGGAAGGTTGCACACCTATTGGCAAGGTCAAACTTCAAATCTTG AAAAGAAGTCTGACCTTGTTGCCGTAAGAAATATTGTAAGATCAAGAAGGAATCCAAAAG ATGCTGGTGATTTGTCCAGTCGCCATGAGCTTGTTACAGAAATAGATTCTAACTTACATC CTGGCCTTTTCGATATTGTTAAGAATTGCACATATGTTGGAGTTGCGGATGAAGTTTTCG CTTTGATACAACACAATACCCTCTTATACCTTGTCAATGTGGTAAATGTTAGCAAAGAAC TCATGTACCAACAAGCCTTGTGCCGTTTTGGGAACTTCAATGCTATAAAACTCAGTGAAC CAGCTCCACTTCTGGAGTTGCTGAGAATGGCACTGAAAGATGACGAGTCAATGAGTGATG TAAATGAGAAGGAGAAACTAGAAATTGCAGAAGTGAACACTGAGATACTGAAAGAAAATG CTGAGATGATTAATGAGTACTTCTCTATTCACATTGATCAAGGTGGCAACCTGACCAGAC TTCCTGTTGTACTTGATCAGTACACTCCTGATATGGATCGCCTTCCAGAGTTCATGTTGA GTCTAGGAAATGATATATGGCAGCCAGCTGTCCAGAAGTAACTTATGTTTCTTATTTTGT ACTGTATAAGTCACTTGATTACCTGGGACGTTGAGAAAGAGTGCTTCAGAACGGCAGCAG CTGCTATCGGAAACTTCTATGCGCTTCATCCTCCCATCCTTCCAAATCCATCTGGCAAAG GCATTCAGTTATACAAGAAAAATAAAGATTGCATGGGAAGTGCTGAACAGGCTGATAACA ATTTACCAAGTACAGATGAAGATGACATCGATCAAGAGCTGCTTGCGGAAGCAGAGGCAG CATGGGCTCAACGTGAGTGGACCATCCAGCACGTCTTGTTCCCGTCGATGCGACTTTTCC TCAAGCCCCCTAAGTCGATGGCAACTGATGGAACGTTTGTCCAGATTGCTTCTCTAGACA AGCTTTACAAGATCTTCGAGAGATGCTAGCCGACAAGCGGCATGTCGAGAAGGAAGGGAA GAGCGCGACGCGACCGACGCCCTTGCCGGTTCCTTCCGGGACGTGTGTATATAATGCGGT GTCACTGTTTTTTCCCCCCTTTTTCCGATAGGGCTGTAAATATTTTTGAAGGACGAGCAA AGTTTGCTGGGCTCCAGCTCAGCCCTGGAATTGAATGGCAAATGCACGAATGATTTGGCT CTGCTACGCAATGCTGTCATTGTTGTTTCCCT
Protein Sequence (373 aa)
>BART1_0-u25435.027 373 150831_barley_pseudomolecules EPPRIRRLEESVVNRIAAGEVIQRPSSAVKELVENSIDAGSSTISVTVKDGGLKLIQVSD DGHGIRCEDLPILCERHTTSKLSAYEDLQTIKSMGFRGEALASMTYVGHVTVTTITEGQL HGYRVSYRDGVMENDPKPCAAVKGTQIMVENLFYNMVARRKTLQNSNDDYPKIVDFISRF AVHHINVNFSCRKHGANRADVHSGSTSSRLDAIRNVYGASVVRDLMEIQVSDENAVDEIF KMDGFISNANYVAKKTTMILFINDRLVDCTSLKRATEFVYSAILPQASKPFIYMSINLPP EHVDVNIHPTKKEVSLLNQERIIEKIKDAIEEKLVNCNNTRIFQTQALNPSALTQANTRK DMGTEEKNLKRFL