- Transcript BART1_0-u25435.028
- Transcript IDBART1_0-u25435.028
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.028
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681733477 | 681733250 | - |
| chr3H | 2 | 681734115 | 681733967 | - |
| chr3H | 3 | 681734573 | 681734396 | - |
| chr3H | 4 | 681735055 | 681734894 | - |
| chr3H | 5 | 681735390 | 681735231 | - |
| chr3H | 6 | 681735974 | 681735866 | - |
| chr3H | 7 | 681736144 | 681736050 | - |
| chr3H | 8 | 681736609 | 681736477 | - |
| chr3H | 9 | 681737010 | 681736938 | - |
| chr3H | 10 | 681737704 | 681737606 | - |
| chr3H | 11 | 681737948 | 681737800 | - |
| chr3H | 12 | 681738516 | 681738306 | - |
| chr3H | 13 | 681738721 | 681738587 | - |
| chr3H | 14 | 681738867 | 681738807 | - |
| chr3H | 15 | 681739133 | 681738961 | - |
| chr3H | 16 | 681739931 | 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 | 9.43034 | 9.42642 | 5.42011 |
| morex | ETI | 15.4878 | 18.5506 | 27.2295 |
| morex | LEA | 5.98692 | 4.31495 | 6.14903 |
| morex | EPI | 5.90347 | 7.92143 | 4.87709 |
| morex | ROO | 0 | 3.97709 | 3.83283 |
| morex | ROO2 | 9.41691 | 10.8908 | 9.99585 |
| morex | NOD | 6.74489 | 9.22845 | 29.4981 |
| morex | RAC | 10.4923 | 14.0035 | 15.1911 |
| morex | INF1 | 19.1842 | 27.11 | 25.958 |
| morex | INF2 | 37.4333 | 32.4295 | 40.8351 |
| morex | CAR5 | 12.6906 | 10.5355 | 9.07593 |
| morex | CAR15 | 2.54428 | 2.82735 | 4.80209 |
| morex | LEM | 19.6639 | 18.2527 | 14.9573 |
| morex | LOD | 16.5907 | 25.8458 | 14.0345 |
| morex | PAL | 9.41951 | 11.3312 | 11.2043 |
| morex | SEN | 13.168 | 15.0737 | 11.4096 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g72880.1 | +2 | 0.0 | 1152 | 605/707 (86%) | protein|DNA mismatch repair protein Mlh1, putative, expressed |
| TAIR PP10 | AT4G09140 @ ARAPORT AT4G09140.1 @ TAIR |
+2 | 0.0 | 885 | 472/709 (67%) | Symbols: ATMLH1, MLH1 | MUTL-homologue 1 | chr4:5817107-5821035 REVERSE LENGTH=737 |
| BRACH PP3 | Bradi2g61370.1.p | +2 | 0.0 | 1238 | 644/707 (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 (2293 bp)
>BART1_0-u25435.028 2293 150831_barley_pseudomolecules GCTGGAGGAGTCGGTGGTGAACCGCATCGCCGCGGGGGAGGTGATCCAGCGGCCCTCGTC GGCGGTGAAGGAACTCGTCGAGAACAGCATCGACGCCGGCTCCTCCACCATCTCCGTCAC CGTCAAGGACGGGGGCCTCAAGCTCATCCAGGTCTCGGACGACGGCCACGGCATCCGGTG TGAGGACTTGCCAATATTGTGTGAGAGGCATACTACCTCAAAGTTGTCTGCATATGAGGA TCTACAGACAATAAAGTCCATGGGGTTCAGAGGGGAGGCTTTGGCCAGTATGACTTATGT TGGCCATGTTACCGTGACAACAATAACAGAAGGCCAACTGCATGGCTACAGGGATGGAGT AATGGAGAATGACCCAAAGCCCTGTGCTGCGGTTAAAGGAACTCAAATCATGGTTGAAAA TTTATTCTACAATATGGTAGCTCGTAGGAAAACACTGCAGAACTCCAATGATGACTATCC AAAGATAGTGGACTTCATCAGTCGGTTTGCAGTCCATCACATCAATGTGAACTTCTCTTG CAGAAAGCATGGAGCCAATAGAGCAGATGTTCACAGTGGGAGCACATCTTCAAGGCTAGA TGCTATCAGGAATGTCTATGGGGCTTCGGTTGTTCGTGATCTGATGGAAATACAGGTTTC AGATGAGAATGCTGTAGATGAAATATTCAAGATGGATGGTTTCATCTCAAATGCAAATTA TGTGGCAAAGAAGACTACTATGATTCTTTTCATAAATGATCGACTTGTAGATTGCACTTC TTTGAAAAGAGCTACTGAATTTGTGTACTCTGCAATACTGCCTCAAGCATCGAAACCCTT CATATACATGTCCATCAATCTTCCACCAGAACACGTGGATGTCAATATACATCCAACCAA AAAGGAGGTTAGCCTCTTAAATCAAGAGCGTATTATTGAAAAAATTAAAGATGCCATCGA GGAAAAACTGGTGAACTGTAATAACACAAGGATATTCCAAACTCAGGCACTAAACCCTTC AGCACTTACTCAAGCTAACACACGAAAGGACATGGGTACCGAGGTCAGCACGCCTACTGG AGAAAAATCTCAAAAGATTCCTGTGAGCCAAATTGTCAGAACAGATCCTCGCGATCCATC TGGAAGGTTGCACACCTATTGGCAAGGTCAAACTTCAAATCTTGAAAAGAAGTCTGACCT TGTTGCCGTAAGAAATATTGTAAGATCAAGAAGGAATCCAAAAGATGCTGGTGATTTGTC CAGTCGCCATGAGCTTGTTACAGAAATAGATTCTAACTTACATCCTGGCCTTTTCGATAT TGTTAAGAATTGCACATATGTTGGAGTTGCGGATGAAGTTTTCGCTTTGATACAACACAA TACCCTCTTATACCTTGTCAATGTGGTAAATGTTAGCAAAGAACTCATGTACCAACAAGC CTTGTGCCGTTTTGGGAACTTCAATGCTATAAAACTCAGTGAACCAGCTCCACTTCTGGA GTTGCTGAGAATGGCACTGAAAGATGACGAGTCAATGAGTGATGTAAATGAGAAGGAGAA ACTAGAAATTGCAGAAGTGAACACTGAGATACTGAAAGAAAATGCTGAGATGATTAATGA GTACTTCTCTATTCACATTGATCAAGGTGGCAACCTGACCAGACTTCCTGTTGTACTTGA TCAGTACACTCCTGATATGGATCGCCTTCCAGAGTTCATGTTGAGTCTAGGAAATGATAT TACCTGGGACGTTGAGAAAGAGTGCTTCAGAACGGCAGCAGCTGCTATCGGAAACTTCTA TGCGCTTCATCCTCCCATCCTTCCAAATCCATCTGGCAAAGGCATTCAGTTATACAAGAA AAATAAAGATTGCATGGGAAGTGCTGAACAGGCTGATAACAATTTACCAAGTACAGATGA AGATGACATCGATCAAGAGCTGCTTGCGGAAGCAGAGGCAGCATGGGCTCAACGTGAGTG GACCATCCAGCACGTCTTGTTCCCGTCGATGCGACTTTTCCTCAAGCCCCCTAAGTCGAT GGCAACTGATGGAACGTTTGTCCAGATTGCTTCTCTAGACAAGCTTTACAAGATCTTCGA GAGATGCTAGCCGACAAGCGGCATGTCGAGAAGGAAGGGAAGAGCGCGACGCGACCGACG CCCTTGCCGGTTCCTTCCGGGACGTGTGTATATAATGCGGTGTCACTGTTTTTTCCCCCC TTTTTCCGATAGGGCTGTAAATATTTTTGAAGGACGAGCAAAGTTTGCTGGGCTCCAGCT CAGCCCTGGAATT
Protein Sequence (702 aa)
>BART1_0-u25435.028 702 150831_barley_pseudomolecules LEESVVNRIAAGEVIQRPSSAVKELVENSIDAGSSTISVTVKDGGLKLIQVSDDGHGIRC EDLPILCERHTTSKLSAYEDLQTIKSMGFRGEALASMTYVGHVTVTTITEGQLHGYRDGV MENDPKPCAAVKGTQIMVENLFYNMVARRKTLQNSNDDYPKIVDFISRFAVHHINVNFSC RKHGANRADVHSGSTSSRLDAIRNVYGASVVRDLMEIQVSDENAVDEIFKMDGFISNANY VAKKTTMILFINDRLVDCTSLKRATEFVYSAILPQASKPFIYMSINLPPEHVDVNIHPTK KEVSLLNQERIIEKIKDAIEEKLVNCNNTRIFQTQALNPSALTQANTRKDMGTEVSTPTG EKSQKIPVSQIVRTDPRDPSGRLHTYWQGQTSNLEKKSDLVAVRNIVRSRRNPKDAGDLS SRHELVTEIDSNLHPGLFDIVKNCTYVGVADEVFALIQHNTLLYLVNVVNVSKELMYQQA LCRFGNFNAIKLSEPAPLLELLRMALKDDESMSDVNEKEKLEIAEVNTEILKENAEMINE YFSIHIDQGGNLTRLPVVLDQYTPDMDRLPEFMLSLGNDITWDVEKECFRTAAAAIGNFY ALHPPILPNPSGKGIQLYKKNKDCMGSAEQADNNLPSTDEDDIDQELLAEAEAAWAQREW TIQHVLFPSMRLFLKPPKSMATDGTFVQIASLDKLYKIFERC