- Transcript BART1_0-u53291.005
- Transcript IDBART1_0-u53291.005
- Gene IDBART1_0-u53291
Barley RTD
Exon Structure of BART1_0-u53291.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 367195109 | 367194645 | + |
| chr7H | 2 | 367196042 | 367195969 | + |
| chr7H | 3 | 367196298 | 367196124 | + |
| chr7H | 4 | 367196746 | 367196670 | + |
| chr7H | 5 | 367197114 | 367196832 | + |
| chr7H | 6 | 367197307 | 367197240 | + |
| chr7H | 7 | 367198300 | 367198088 | + |
| chr7H | 8 | 367199114 | 367198377 | + |
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 | 0.885416 |
| morex | ETI | 7.73201 | 5.38517 | 11.6432 |
| morex | LEA | 0.688334 | 0 | 0 |
| morex | EPI | 0.863352 | 0 | 2.70942 |
| morex | ROO | 0 | 0.90509 | 0.274386 |
| morex | ROO2 | 0 | 1.07854 | 0.624516 |
| morex | NOD | 0.00000440712 | 0.776455 | 5.94515 |
| morex | RAC | 0 | 1.83907 | 1.17663 |
| morex | INF1 | 1.0034 | 2.98499 | 2.1445 |
| morex | INF2 | 3.56148 | 2.76207 | 2.25599 |
| morex | CAR5 | 0.0000014694 | 0 | 0.000000509212 |
| morex | CAR15 | 0.864845 | 0 | 0.438473 |
| morex | LEM | 3.6969 | 7.47777 | 2.16299 |
| morex | LOD | 2.86147 | 0.826124 | 2.44994 |
| morex | PAL | 3.36698 | 0 | 3.09292 |
| morex | SEN | 0.733731 | 2.49994 | 1.71015 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g12760.2 | +3 | 1e-109 | 344 | 173/224 (77%) | protein|YT521-B, putative, expressed |
| TAIR PP10 | AT3G13060 @ ARAPORT AT3G13060.2 @ TAIR |
+3 | 4e-57 | 205 | 94/160 (59%) | Symbols: ECT5 | evolutionarily conserved C-terminal region 5 | chr3:4180625-4183632 FORWARD LENGTH=634 |
| BRACH PP3 | Bradi3g18190.1.p | +3 | 5e-137 | 416 | 203/242 (84%) | pacid=32821513 transcript=Bradi3g18190.1 locus=Bradi3g18190 ID=Bradi3g18190.1.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 (2093 bp)
>BART1_0-u53291.005 2093 150831_barley_pseudomolecules AGGGATCTTAAATTCCCGACACACGTGTGTGCATGGCTTGCTTGTACGCTGAAGGGGACG GATAGCTGGCTTGATCAAATCCCAGATTTTCTCATTAGCAGCCTACGGACAGACTGTAAC CGGATGTTAGTTCGTTGATGATGAATAAAGTCCCAATTCGATGAAAGAAAAATCCGGACC GGGATTGTGCGCGTGGACAAAACGAGCCGGCACAGGTCCGGTTTTTAAAGCCCGCGATGA TTAGCGTGGCCGGACCTCTTCCTCTTCGTCTCGCATACTCACCAGCGTCAAACCCGACGG TGGAAGGAAGCCCCTCCTCGCCGACCATCGACGGCCTCCGTGTCTCCTCCAGCCGGAGAA CGTAGCTACGCTAGCCCCTCTTTCCTCTCCTGTTTCGTCCCCCTCCTCCTCGTCCCATCT GCTGGAACATGGCGTTGAGCGGAGGAGATTCGTCCGGATTCGTCGATTGCACAATTCTGC TGCAATCAGAAATTGTAGTTGATAATAACCCCTCCAAGAGTACAAATACCAAAGAGCAGA TTATTTCTATTACGGCTGAGAAAACAAGTGCTTCTGATGCGCGGGGCTCTACCTCCTTAA AGTCACCAAAAGGTGCACAAGAGAAGGCTAATTTTTTGGGAAAAGGTGGAGAACAGCCTT ATGTCTACCAGCCCAATGTGTATGCTCCACAGCCACAGACAGTCTATTCTGGAGGATATA TCAACCCTTCAGGGCAATGGGAAGAGTATCCCTATTATGTGAGTATGGAAGGAGTCCATT CTGCGTCACCTTCAATCATGCTATCTCCTGGGTATGCGAACAACCCCCAAATGATGTATG GAGCTTATTCTCCTGTTTCAACTGTTGGAGAGGGTCAGTCCTACTCCCCTATGCACTTCC CCTTCTCAAATCCGTACTACCAGCCACCGGCTTCTCTTAGTATGGGATATTCAAATTCTG GTACTGGAATGTCTCAAGGAGACCCTATGCTTCAGCAAGAGTACTTCCTTCCTGATGGTC TTCTCTATTCACCCACAGCAGTGTACCGCCAACCATTTGGGTCATACAACAGAGCGGCAA CACAACCAAGCAATGCTTCGGGACTATTTGGGCAAGGGAATGCACCATTGGCTTTTGGAA TGGTTAATGGCAGTGGTCAGTTCTGCGGTGTTGCTGAGATGATTGGACCTGTTGACTTCG ACAGGAGCGTTGATTATTGGCAGCAAGACAAGTGGAGTGGCCAGTTTCCTGTGAAGTGGC ACATTATTAAGGATGTCCCAAACACCCTACTCCGGCACATCACTCTTGAGAACAATGACA ACAAACCTGTAACAAATAGCAGGGACACTCAGGAGGTCAAGCTAGAGTATGGTCTCCAGA TGCTAAGCATATTCAAGAATCATGAGGCCGAGACAACCATTGTGGAGGACTTCGACTTCT ATGAGCAACGGGAGGAAGCCTTGAAGGAAAATAGACGTCAGCAGCAGCCTGGCAGCGCAG AGTCCCTGAAGCCAACAGATGCTAAGGCTGTAGGAAGTTCTGTTACTCATATCGTGGATT CATTTTCTCGAAGCGTCCAGCTGAAAGAGATCGAGAAAAGTGATAAGAGAACTGATGGTG CCATCTCAGTGAATGGTTCACAGACAGCTACCGTCAAGGCCGAAAAAAGCACTGCAAACA AAACTACAGGTTCTGTGGAGGAGAGCAGTTGATTACCTCCTGCCATTTACTAGTTTGGAG CAGCAGTTGGATCCATATGATTTGATGCTCGTCTGGAGTTGAGAAGGGAAAAAGCTGCCG ATTCGGGTTTAGATTTGGGCTGCTGCTGCTTGCAGTTGTGAACATCATACTCCTTATTTC GCCTCCATTTAGGTTATAGTTTTTCAATATCATAGTTTCAAAATTCTTGTTTGTGGATCC TTGCTTCTGTGTTCTTTCTTGTTTTCTTCTCTCTTTGTTTTACTTGCGTTGTGTCGTGAA TGCTGTTCAGTTTTAGTGGCCTTCTCATCACTTTTGGTTTACCGTCTGTCATAAATGCTG CCCAGTTGTGTTGTGAATGATGTTCTCTTTTACTACTCCCTCCGTCTNNNNNN
Protein Sequence (427 aa)
>BART1_0-u53291.005 427 150831_barley_pseudomolecules MALSGGDSSGFVDCTILLQSEIVVDNNPSKSTNTKEQIISITAEKTSASDARGSTSLKSP KGAQEKANFLGKGGEQPYVYQPNVYAPQPQTVYSGGYINPSGQWEEYPYYVSMEGVHSAS PSIMLSPGYANNPQMMYGAYSPVSTVGEGQSYSPMHFPFSNPYYQPPASLSMGYSNSGTG MSQGDPMLQQEYFLPDGLLYSPTAVYRQPFGSYNRAATQPSNASGLFGQGNAPLAFGMVN GSGQFCGVAEMIGPVDFDRSVDYWQQDKWSGQFPVKWHIIKDVPNTLLRHITLENNDNKP VTNSRDTQEVKLEYGLQMLSIFKNHEAETTIVEDFDFYEQREEALKENRRQQQPGSAESL KPTDAKAVGSSVTHIVDSFSRSVQLKEIEKSDKRTDGAISVNGSQTATVKAEKSTANKTT GSVEESS