- Transcript BART1_0-u53291.004
- Transcript IDBART1_0-u53291.004
- Gene IDBART1_0-u53291
Barley RTD
Exon Structure of BART1_0-u53291.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 367195109 | 367194554 | + |
| chr7H | 2 | 367196042 | 367195969 | + |
| chr7H | 3 | 367196298 | 367196124 | + |
| chr7H | 4 | 367196746 | 367196670 | + |
| chr7H | 5 | 367196913 | 367196832 | + |
| chr7H | 6 | 367197114 | 367197019 | + |
| chr7H | 7 | 367197307 | 367197240 | + |
| chr7H | 8 | 367197953 | 367197465 | + |
| chr7H | 9 | 367198300 | 367198088 | + |
| chr7H | 10 | 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 |
| morex | ETI | 3.15896 | 0.634813 | 0.0000000981109 |
| morex | LEA | 1.05591 | 0 | 0.596078 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 1.52325 | 1.06738 | 0 |
| morex | ROO2 | 0 | 0 | 1.04196 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0.502969 | 0 | 0.432618 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0.832402 | 0 |
| morex | CAR5 | 0 | 2.35808 | 0 |
| morex | CAR15 | 0 | 0.458739 | 0 |
| morex | LEM | 0.782138 | 1.33958 | 0.77314 |
| morex | LOD | 0 | 0.874618 | 0 |
| morex | PAL | 0.00000207621 | 0.000000120802 | 0.00000285387 |
| morex | SEN | 1.01792 | 0.56825 | 0.00000178187 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g12760.2 | +1 | 0.0 | 818 | 401/572 (70%) | protein|YT521-B, putative, expressed |
| TAIR PP10 | AT3G13060 @ ARAPORT AT3G13060.2 @ TAIR |
+1 | 1e-99 | 323 | 184/397 (46%) | Symbols: ECT5 | evolutionarily conserved C-terminal region 5 | chr3:4180625-4183632 FORWARD LENGTH=634 |
| BRACH PP3 | Bradi3g18190.1.p | +1 | 0.0 | 946 | 460/591 (78%) | 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 (2568 bp)
>BART1_0-u53291.004 2568 150831_barley_pseudomolecules CCTAAATACACGCTCTATTGCGGCGTCTATCTTATAAAAATTGAACAACATAGTTTCTTA CTTTTCTTTCTTTTCGGTTCAATATCTTGATAGGGATCTTAAATTCCCGACACACGTGTG TGCATGGCTTGCTTGTACGCTGAAGGGGACGGATAGCTGGCTTGATCAAATCCCAGATTT TCTCATTAGCAGCCTACGGACAGACTGTAACCGGATGTTAGTTCGTTGATGATGAATAAA GTCCCAATTCGATGAAAGAAAAATCCGGACCGGGATTGTGCGCGTGGACAAAACGAGCCG GCACAGGTCCGGTTTTTAAAGCCCGCGATGATTAGCGTGGCCGGACCTCTTCCTCTTCGT CTCGCATACTCACCAGCGTCAAACCCGACGGTGGAAGGAAGCCCCTCCTCGCCGACCATC GACGGCCTCCGTGTCTCCTCCAGCCGGAGAACGTAGCTACGCTAGCCCCTCTTTCCTCTC CTGTTTCGTCCCCCTCCTCCTCGTCCCATCTGCTGGAACATGGCGTTGAGCGGAGGAGAT TCGTCCGGATTCGTCGATTGCACAATTCTGCTGCAATCAGAAATTGTAGTTGATAATAAC CCCTCCAAGAGTACAAATACCAAAGAGCAGATTATTTCTATTACGGCTGAGAAAACAAGT GCTTCTGATGCGCGGGGCTCTACCTCCTTAAAGTCACCAAAAGGTGCACAAGAGAAGGCT AATTTTTTGGGAAAAGGTGGAGAACAGCCTTATGTCTACCAGCCCAATGTGTATGCTCCA CAGCCACAGACAGTCTATTCTGGAGGATATATCAACCCTTCAGGGCAATGGGAAGAGTAT CCCTATTATGTGAGTATGGAAGGAGTCCATTCTGCGTCACCTTCAATCATGCTATCTCCT GGGTATGCGAACAACCCCCAAATGATGTATGGAGCTTATTCTCCTGTTTCAACTGTTGGA GAGGGAGACCCTATGCTTCAGCAAGAGTACTTCCTTCCTGATGGTCTTCTCTATTCACCC ACAGCAGTGTACCGCCAACCATTTGGGTCATACAACAGAGCGGCAACACAACCAAGCAAT GCTTCGGGACTATTTGGGCAAGGGAATGCACCATTGGCTTTTGGAATGCAGCATGGAACA ATGTATAATTCTGGATCCTACAAGGCACACCAACAAGCTAGTAAATATGGAGGCACTACT CCTAATTGGGGTTCTGCCGGTCGTAGATTTAATAATTTTGACTGCAACTCCAGTCAACAA AGGGGGAGCATGCCATTCAATATCCAGAATGGTGCTCTGGAGTTTCTGAACGAGCAAAAC CGCGGCCCACGTGCTGCAAAACCAAAGAAACAAGACAGAGACAATTCTTTAGTAGATGAC AAAAGCGAGAAAACCACTCTGCTTATTGACAGTGAACTGTACAATCGTCCTGATTTTGCC ACGGAGTACAAGGATGCGATTTTTTTTGTAATTAAATCATACACAGAGGACCATGTACAT AGGAGCATTAAGTACAATGTCTGGGCCAGCACAGCTAGTGGGAATAGAAAGCTGGATTCA GCTTATCGTGCGGCCAAACAGAAAGAAGACCATTCCCGTGTTTTCTTGTTCTTCTCGGTT AATGGCAGTGGTCAGTTCTGCGGTGTTGCTGAGATGATTGGACCTGTTGACTTCGACAGG AGCGTTGATTATTGGCAGCAAGACAAGTGGAGTGGCCAGTTTCCTGTGAAGTGGCACATT ATTAAGGATGTCCCAAACACCCTACTCCGGCACATCACTCTTGAGAACAATGACAACAAA CCTGTAACAAATAGCAGGGACACTCAGGAGGTCAAGCTAGAGTATGGTCTCCAGATGCTA AGCATATTCAAGAATCATGAGGCCGAGACAACCATTGTGGAGGACTTCGACTTCTATGAG CAACGGGAGGAAGCCTTGAAGGAAAATAGACGTCAGCAGCAGCCTGGCAGCGCAGAGTCC CTGAAGCCAACAGATGCTAAGGCTGTAGGAAGTTCTGTTACTCATATCGTGGATTCATTT TCTCGAAGCGTCCAGCTGAAAGAGATCGAGAAAAGTGATAAGAGAACTGATGGTGCCATC TCAGTGAATGGTTCACAGACAGCTACCGTCAAGGCCGAAAAAAGCACTGCAAACAAAACT ACAGGTTCTGTGGAGGAGAGCAGTTGATTACCTCCTGCCATTTACTAGTTTGGAGCAGCA GTTGGATCCATATGATTTGATGCTCGTCTGGAGTTGAGAAGGGAAAAAGCTGCCGATTCG GGTTTAGATTTGGGCTGCTGCTGCTTGCAGTTGTGAACATCATACTCCTTATTTCGCCTC CATTTAGGTTATAGTTTTTCAATATCATAGTTTCAAAATTCTTGTTTGTGGATCCTTGCT TCTGTGTTCTTTCTTGTTTTCTTCTCTCTTTGTTTTACTTGCGTTGTGTCGTGAATGCTG TTCAGTTTTAGTGGCCTTCTCATCACTTTTGGTTTACCGTCTGTCATAAATGCTGCCCAG TTGTGTTGTGAATGATGTTCTCTTTTACTACTCCCTCCGTCTNNNNNN
Protein Sequence (555 aa)
>BART1_0-u53291.004 555 150831_barley_pseudomolecules MALSGGDSSGFVDCTILLQSEIVVDNNPSKSTNTKEQIISITAEKTSASDARGSTSLKSP KGAQEKANFLGKGGEQPYVYQPNVYAPQPQTVYSGGYINPSGQWEEYPYYVSMEGVHSAS PSIMLSPGYANNPQMMYGAYSPVSTVGEGDPMLQQEYFLPDGLLYSPTAVYRQPFGSYNR AATQPSNASGLFGQGNAPLAFGMQHGTMYNSGSYKAHQQASKYGGTTPNWGSAGRRFNNF DCNSSQQRGSMPFNIQNGALEFLNEQNRGPRAAKPKKQDRDNSLVDDKSEKTTLLIDSEL YNRPDFATEYKDAIFFVIKSYTEDHVHRSIKYNVWASTASGNRKLDSAYRAAKQKEDHSR VFLFFSVNGSGQFCGVAEMIGPVDFDRSVDYWQQDKWSGQFPVKWHIIKDVPNTLLRHIT LENNDNKPVTNSRDTQEVKLEYGLQMLSIFKNHEAETTIVEDFDFYEQREEALKENRRQQ QPGSAESLKPTDAKAVGSSVTHIVDSFSRSVQLKEIEKSDKRTDGAISVNGSQTATVKAE KSTANKTTGSVEESS