- Transcript BART1_0-u25435.023
- Transcript IDBART1_0-u25435.023
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.023
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681733477 | 681733067 | - |
| chr3H | 2 | 681734115 | 681733967 | - |
| chr3H | 3 | 681734573 | 681734396 | - |
| chr3H | 4 | 681734745 | 681734683 | - |
| chr3H | 5 | 681735055 | 681734894 | - |
| chr3H | 6 | 681735974 | 681735231 | - |
| chr3H | 7 | 681736144 | 681736050 | - |
| chr3H | 8 | 681736609 | 681736477 | - |
| chr3H | 9 | 681737010 | 681736954 | - |
| chr3H | 10 | 681737704 | 681737606 | - |
| chr3H | 11 | 681737948 | 681737800 | - |
| chr3H | 12 | 681738516 | 681738306 | - |
| chr3H | 13 | 681738721 | 681738587 | - |
| chr3H | 14 | 681738879 | 681738807 | - |
| chr3H | 15 | 681739133 | 681738961 | - |
| chr3H | 16 | 681739956 | 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 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0.107126 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.0288876 | 0 | 0 |
| morex | NOD | 0.814479 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0.254343 | 0 |
| morex | CAR5 | 0.00405616 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 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 | 647 | 324/366 (89%) | protein|DNA mismatch repair protein Mlh1, putative, expressed |
| TAIR PP10 | AT4G09140 @ ARAPORT AT4G09140.1 @ TAIR |
+3 | 3e-178 | 537 | 266/367 (72%) | Symbols: ATMLH1, MLH1 | MUTL-homologue 1 | chr4:5817107-5821035 REVERSE LENGTH=737 |
| BRACH PP3 | Bradi2g61370.2.p | +3 | 0.0 | 677 | 340/366 (93%) | pacid=32771965 transcript=Bradi2g61370.2 locus=Bradi2g61370 ID=Bradi2g61370.2.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 (3035 bp)
>BART1_0-u25435.023 3035 150831_barley_pseudomolecules GCGGGGAGCCGCCCCGCATCCGGCGGCTGGAGGAGTCGGTGGTGAACCGCATCGCCGCGG GGGAGGTGATCCAGCGGCCCTCGTCGGCGGTGAAGGAACTCGTCGAGAACAGCATCGACG CCGGCTCCTCCACCATCTCCGTCACCGTCAAGGACGGGGGCCTCAAGCTCATCCAGGTCT CGGACGACGGCCACGGCATCCGGTGTGAGGACTTGCCAATATTGTGTGAGAGGCATACTA CCTCAAAGTTGTCTGCATATGAGGATCTACAGACAATAAAGTCCATGGGGTTCAGAGGGG AGGCTTTGGCCAGTATGACTTATGTTGGCCATGTTACCGTGACAACAATAACAGAAGGCC AACTGCATGGCTACAGAGTTTCTTATAGGGATGGAGTAATGGAGAATGACCCAAAGCCCT GTGCTGCGGTTAAAGGAACTCAAATCATGGTTGAAAATTTATTCTACAATATGGTAGCTC GTAGGAAAACACTGCAGAACTCCAATGATGACTATCCAAAGATAGTGGACTTCATCAGTC GGTTTGCAGTCCATCACATCAATGTGAACTTCTCTTGCAGAAAGCATGGAGCCAATAGAG CAGATGTTCACAGTGGGAGCACATCTTCAAGGCTAGATGCTATCAGGAATGTCTATGGGG CTTCGGTTGTTCGTGATCTGATGGAAATACAGGTTTCAGATGAGAATGCTGTAGATGAAA TATTCAAGATGGATGGTTTCATCTCAAATGCAAATTATGTGGCAAAGAAGACTACTATGA TTCTTTTCATAAATGATCGACTTGTAGATTGCACTTCTTTGAAAAGAGCTACTGAATTTG TGTACTCTGCAATACTGCCTCAAGCATCGAAACCCTTCATATACATGTCCATCAATCTTC CACCAGAACACGTGGATGTCAATATACATCCAACCAAAAAGGAGGTTAGCCTCTTAAATC AAGAGCGTATTATTGAAAAAATTAAAGATGCCATCGAGGAAAAACTGGTGAACTGTAATA ACACAAGGATATTCCAAACTCAGGCACTAAACCCTTCAGCACTTACTCAAGCTAACACAC GAAAGGACATGGGTACCGAGGAGAAAAATCTCAAAAGATTCCTGTGAGCCAAATTGTCAG AACAGATCCTCGCGATCCATCTGGAAGGTTGCACACCTATTGGCAAGGTCAAACTTCAAA TCTTGAAAAGAAGTCTGACCTTGTTGCCGTAAGAAATATTGTAAGATCAAGAAGGAATCC AAAAGATGCTGGTGATTTGTCCAGTCGCCATGAGCTTGTTACAGAAATAGATTCTAACTT ACATCCTGGCCTTTTCGATATTGTTAAGAATTGCACATATGTTGGAGTTGCGGATGAAGT TTTCGCTTTGATACAACACAATACCCTCTTATACCTTGTCAATGTGGTAAATGTTAGGTA AACTCTATACAGTACATTGATGACTAGTCATACTCTTCTATGCTTTGTATCTCTTATTTA AGCTAGATTTTTTCTTCTAACATCTGACATAGTTATTTGAAGGTAACCGATACCCCAGTT ACCTGTACATATTTGCAAATGCACGCGCACACAAACAATATTGCTTGCACACACCACCAT CAAACTGCTATCCATTCACATCGCATCCAGTTGAACGCCTGCAACTGCTAAATAATAAGC ACCTCTTCCAAATATTGCATTGTTTTCTTTTCTGTACCACTCCCTCTGTTTCTAAATATA AGTCTTTTTAAAGATTTCACTAGGGGACTACATACAGAGCAAAATGAGTGAATCTATACT CTAATATATGTATATATACATCCGTATGTAGTTTTCTAGTGGAAATTCTAAAAAGACTTA TATTTAGGAACGAAGGGAGTATATGATATTGATGATTCAGCTTGTGATGCAGCAAAGAAC TCATGTACCAACAAGCCTTGTGCCGTTTTGGGAACTTCAATGCTATAAAACTCAGTGAAC CAGCTCCACTTCTGGAGTTGCTGAGAATGGCACTGAAAGATGACGAGTCAATGAGTGATG TAAATGAGAAGGAGAAACTAGAAATTGCAGAAGTGAACACTGAGATACTGAAAGAAAATG CTGAGATGATTAATGAGTACTTCTCTATTCACATTGATCAAGGTGGCAACCTGACCAGAC TTCCTGTTGTACTTGATCAGTACACTCCTGATATGGATCGCCTTCCAGAGTTCATGTTGA GTCTAGGAAATGATATATGGCAGCCAGCTGTCCAGAAGTAACTTATGTTTCTTATTTTGT ACTGTATAAGTCACTTGATTACCTGGGACGTTGAGAAAGAGTGCTTCAGAACGGCAGCAG CTGCTATCGGAAACTTCTATGCGCTTCATCCTCCCATCCTTCCAAATCCATCTGGCAAAG GCATTCAGTTATACAAGAAAAATAAAGATTGCATGGGAAGTGCTGAACAGGCTGATAACA ATTTACCAAGTACAGATGAAGATGACATCGATCAAGAGCTGCTTGCGGAAGCAGAGGCAG CATGGGCTCAACGTGAGTGGACCATCCAGCACGTCTTGTTCCCGTCGATGCGACTTTTCC TCAAGCCCCCTAAGTCGATGGCAACTGATGGAACGTTTGTCCAGATTGCTTCTCTAGACA AGCTTTACAAGATCTTCGAGAGATGCTAGCCGACAAGCGGCATGTCGAGAAGGAAGGGAA GAGCGCGACGCGACCGACGCCCTTGCCGGTTCCTTCCGGGACGTGTGTATATAATGCGGT GTCACTGTTTTTTCCCCCCTTTTTCCGATAGGGCTGTAAATATTTTTGAAGGACGAGCAA AGTTTGCTGGGCTCCAGCTCAGCCCTGGAATTGAATGGCAAATGCACGAATGATTTGGCT CTGCTACGCAATGCTGTCATTGTTGTTTCCCTCTAATGACCCCGCTGGCAGATATGTCAT GCCCTCTTACAACGATCGCCCAAAAAAAGATTTTACAAAATCAAACGCATGCCTTTTTTT CTTTTCTTTTTCTGATCCGAAGTCAAACAAATTCG
Protein Sequence (374 aa)
>BART1_0-u25435.023 374 150831_barley_pseudomolecules GEPPRIRRLEESVVNRIAAGEVIQRPSSAVKELVENSIDAGSSTISVTVKDGGLKLIQVS DDGHGIRCEDLPILCERHTTSKLSAYEDLQTIKSMGFRGEALASMTYVGHVTVTTITEGQ LHGYRVSYRDGVMENDPKPCAAVKGTQIMVENLFYNMVARRKTLQNSNDDYPKIVDFISR FAVHHINVNFSCRKHGANRADVHSGSTSSRLDAIRNVYGASVVRDLMEIQVSDENAVDEI FKMDGFISNANYVAKKTTMILFINDRLVDCTSLKRATEFVYSAILPQASKPFIYMSINLP PEHVDVNIHPTKKEVSLLNQERIIEKIKDAIEEKLVNCNNTRIFQTQALNPSALTQANTR KDMGTEEKNLKRFL