- Transcript BART1_0-u25435.026
- Transcript IDBART1_0-u25435.026
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.026
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681733477 | 681733172 | - |
| chr3H | 2 | 681734115 | 681733967 | - |
| chr3H | 3 | 681734573 | 681734396 | - |
| chr3H | 4 | 681735055 | 681734894 | - |
| chr3H | 5 | 681735390 | 681735231 | - |
| chr3H | 6 | 681735974 | 681735866 | - |
| chr3H | 7 | 681736132 | 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 | 681739137 | 681738961 | - |
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 | 4.8122 | 0.000933359 | 3.6631 |
| morex | ETI | 3.68927 | 6.2732 | 7.16814 |
| morex | LEA | 3.21001 | 3.25125 | 0.159092 |
| morex | EPI | 3.05991 | 2.87098 | 1.80492 |
| morex | ROO | 4.11027 | 2.15515 | 0.108669 |
| morex | ROO2 | 2.81863 | 4.43404 | 4.62502 |
| morex | NOD | 3.74064 | 3.64267 | 12.0138 |
| morex | RAC | 3.76004 | 5.97501 | 4.13265 |
| morex | INF1 | 15.0588 | 15.9969 | 22.2948 |
| morex | INF2 | 6.60671 | 4.27206 | 5.13307 |
| morex | CAR5 | 0.792505 | 2.03835 | 0 |
| morex | CAR15 | 0.0300279 | 0 | 0.0646882 |
| morex | LEM | 6.79747 | 6.02164 | 5.01306 |
| morex | LOD | 11.3072 | 7.34678 | 5.13789 |
| morex | PAL | 2.38015 | 5.94368 | 2.1098 |
| morex | SEN | 8.77151 | 2.7056 | 3.37502 |
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 | 525 | 289/344 (84%) | protein|DNA mismatch repair protein Mlh1, putative, expressed |
| TAIR PP10 | AT4G09140 @ ARAPORT AT4G09140.1 @ TAIR |
+2 | 0.0 | 421 | 207/300 (69%) | Symbols: ATMLH1, MLH1 | MUTL-homologue 1 | chr4:5817107-5821035 REVERSE LENGTH=737 |
| BRACH PP3 | Bradi2g61370.4.p | +1 | 0.0 | 575 | 309/344 (90%) | pacid=32771968 transcript=Bradi2g61370.4 locus=Bradi2g61370 ID=Bradi2g61370.4.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 (2181 bp)
>BART1_0-u25435.026 2181 150831_barley_pseudomolecules ACAGTGTGAGGACTTGCCAATATTGTGTGAGAGGCATACTACCTCAAAGTTGTCTGCATA TGAGGATCTACAGACAATAAAGTCCATGGGGTTCAGAGGGGAGGCTTTGGCCAGTATGAC TTATGTTGGCCATGTTACCGTGACAACAATAACAGAAGGCCAACTGCATGGCTACAGAGT TTCTTATAGGGATGGAGTAATGGAGAATGACCCAAAGCCCTGTGCTGCGGTTAAAGGAAC TCAAATCATGGTTGAAAATTTATTCTACAATATGGTAGCTCGTAGGAAAACACTGCAGAA CTCCAATGATGACTATCCAAAGATAGTGGACTTCATCAGTCGGTTTGCAGTCCATCACAT CAATGTGAACTTCTCTTGCAGAAAGCATGGAGCCAATAGAGCAGATGTTCACAGTGGGAG CACATCTTCAAGGCTAGATGCTATCAGGAATGTCTATGGGGCTTCGGTTGTTCGTGATCT GATGGAAATACAGGTTTCAGATGAGAATGCTGTAGATGAAATATTCAAGATGGATGGTTT CATCTCAAATGCAAATTATGTGGCAAAGAAGACTACTATGATTCTTTTCATAAATGATCG ACTTGTAGATTGCACTTCTTTGAAAAGAGCTACTGAATTTGTGTACTCTGCAATACTGCC TCAAGCATCGAAACCCTTCATATACATGTCCATCAATCTTCCACCAGAACACGTGGATGT CAATATACATCCAACCAAAAAGGAGGTTAGCCTCTTAAATCAAGAGCGTATTATTGAAAA AATTAAAGATGCCATCGAGGAAAAACTGGTGAACTGTAATAACACAAGGATATTCCAAAC TCAGGCACTAAACCCTTCAGCACTTACTCAAGCTAACACACGAAAGGACATGGGTACCGA GGAGAAAAATCTCAAAAGATTCCTGTGAGCCAAATTGTCAGAACAGATCCTCGCGATCCA TCTGGAAGGTTGCACACCTATTGGCAAGGTCAAACTTCAAATCTTGAAAAGAAGTCTGAC CTTGTTGCCGTAAGATCAAGAAGGAATCCAAAAGATGCTGGTGATTTGTCCAGTCGCCAT GAGCTTGTTACAGAAATAGATTCTAACTTACATCCTGGCCTTTTCGATATTGTTAAGAAT TGCACATATGTTGGAGTTGCGGATGAAGTTTTCGCTTTGATACAACACAATACCCTCTTA TACCTTGTCAATGTGGTAAATGTTAGCAAAGAACTCATGTACCAACAAGCCTTGTGCCGT TTTGGGAACTTCAATGCTATAAAACTCAGTGAACCAGCTCCACTTCTGGAGTTGCTGAGA ATGGCACTGAAAGATGACGAGTCAATGAGTGATGTAAATGAGAAGGAGAAACTAGAAATT GCAGAAGTGAACACTGAGATACTGAAAGAAAATGCTGAGATGATTAATGAGTACTTCTCT ATTCACATTGATCAAGGTGGCAACCTGACCAGACTTCCTGTTGTACTTGATCAGTACACT CCTGATATGGATCGCCTTCCAGAGTTCATGTTGAGTCTAGGAAATGATATTACCTGGGAC GTTGAGAAAGAGTGCTTCAGAACGGCAGCAGCTGCTATCGGAAACTTCTATGCGCTTCAT CCTCCCATCCTTCCAAATCCATCTGGCAAAGGCATTCAGTTATACAAGAAAAATAAAGAT TGCATGGGAAGTGCTGAACAGGCTGATAACAATTTACCAAGTACAGATGAAGATGACATC GATCAAGAGCTGCTTGCGGAAGCAGAGGCAGCATGGGCTCAACGTGAGTGGACCATCCAG CACGTCTTGTTCCCGTCGATGCGACTTTTCCTCAAGCCCCCTAAGTCGATGGCAACTGAT GGAACGTTTGTCCAGATTGCTTCTCTAGACAAGCTTTACAAGATCTTCGAGAGATGCTAG CCGACAAGCGGCATGTCGAGAAGGAAGGGAAGAGCGCGACGCGACCGACGCCCTTGCCGG TTCCTTCCGGGACGTGTGTATATAATGCGGTGTCACTGTTTTTTCCCCCCTTTTTCCGAT AGGGCTGTAAATATTTTTGAAGGACGAGCAAAGTTTGCTGGGCTCCAGCTCAGCCCTGGA ATTGAATGGCAAATGCACGAATGATTTGGCTCTGCTACGCAATGCTGTCATTGTTGTTTC CCTCTAATGACCCCGCTGGCA
Protein Sequence (308 aa)
>BART1_0-u25435.026 308 150831_barley_pseudomolecules QCEDLPILCERHTTSKLSAYEDLQTIKSMGFRGEALASMTYVGHVTVTTITEGQLHGYRV SYRDGVMENDPKPCAAVKGTQIMVENLFYNMVARRKTLQNSNDDYPKIVDFISRFAVHHI NVNFSCRKHGANRADVHSGSTSSRLDAIRNVYGASVVRDLMEIQVSDENAVDEIFKMDGF ISNANYVAKKTTMILFINDRLVDCTSLKRATEFVYSAILPQASKPFIYMSINLPPEHVDV NIHPTKKEVSLLNQERIIEKIKDAIEEKLVNCNNTRIFQTQALNPSALTQANTRKDMGTE EKNLKRFL