- Transcript BART1_0-u35721.004
- Transcript IDBART1_0-u35721.004
- Gene IDBART1_0-u35721
Exon Structure of BART1_0-u35721.004
Chromosome | Exon | Start | Stop | Direction |
---|---|---|---|---|
chr5H | 1 | 405760297 | 405760042 | + |
chr5H | 2 | 405760512 | 405760450 | + |
chr5H | 3 | 405761523 | 405761364 | + |
chr5H | 4 | 405762633 | 405762486 | + |
chr5H | 5 | 405762807 | 405762730 | + |
chr5H | 6 | 405763442 | 405763358 | + |
chr5H | 7 | 405764150 | 405763535 | + |
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 materialsSample | Treatment | Rep 1 | Rep 2 | Rep 3 |
---|---|---|---|---|
morex | EMB | 16.3516 | 5.58678 | 5.92408 |
morex | ETI | 17.8606 | 18.2527 | 12.8958 |
morex | LEA | 5.26013 | 2.04925 | 6.00126 |
morex | EPI | 8.37951 | 21.6422 | 10.454 |
morex | ROO | 11.1388 | 8.05401 | 3.53116 |
morex | ROO2 | 63.047 | 70.6302 | 61.4109 |
morex | NOD | 80.8277 | 131.68 | 38.6707 |
morex | RAC | 81.4674 | 76.2012 | 67.142 |
morex | INF1 | 2.05934 | 3.02591 | 2.04873 |
morex | INF2 | 0 | 1.88137 | 0.462422 |
morex | CAR5 | 10.3339 | 13.887 | 9.70429 |
morex | CAR15 | 2.48499 | 1.0316 | 2.74907 |
morex | LEM | 34.0199 | 25.7631 | 49.0255 |
morex | LOD | 88.0857 | 85.1898 | 100.869 |
morex | PAL | 84.4783 | 80.5443 | 84.4014 |
morex | SEN | 17.3322 | 24.9495 | 23.0754 |
Homology to Model Species (BLASTX to E-value < 1e-30)
Database | Hit | Frame | E-value | Score | % Identity | Description |
---|---|---|---|---|---|---|
Rice PP7 | LOC_Os02g21250.2 | +2 | 2e-99 | 297 | 171/183 (93%) | protein|clathrin adaptor complex small chain domain containing protein, expressed |
TAIR PP10 | AT3G09800 @ ARAPORT AT3G09800.1 @ TAIR |
+2 | 2e-72 | 226 | 127/178 (71%) | Symbols: | SNARE-like superfamily protein | chr3:3006731-3007916 REVERSE LENGTH=179 |
BRACH PP3 | Bradi4g08770.4.p | +2 | 2e-104 | 309 | 178/183 (97%) | pacid=32783612 transcript=Bradi4g08770.4 locus=Bradi4g08770 ID=Bradi4g08770.4.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 (1406 bp)
>BART1_0-u35721.004 1406 150831_barley_pseudomolecules GGCCAGCGGGCCTGTTGGAGTAGCTAAACTAACCAGCTCGTCCATTTCCGCTCGCCTAAT CCCTCCCGTCTTTCTCTACACTCGTCTGCTGCATCTCAGATCTCGCGGGCACCAACAAAC CAAAGCAAAGCTCTCCCGCTGTCCCGATCACTCTCCCTTCCAGGTAACTCCTCCTCTCTA GATCTCCCCCACCTCCATCCTCGGCAAGTCTCAGCTGATTAATCCCATGCGCGCGTTCGC TACCTGTGATCCGCGCGAAGCTTGGACCGGAGGAAGGTGCTGAGAGGGCGGAAAGGAGGC CATGGGGGAATTCTCCAAGGAATCTTGCCCGTCTGTGAAGAACATTTTGCTACTGGATTC TGAGGGAAAGCGCGTTGCTGTGAAGTACTTCTCGGATGATTGGCCGAACAACGCATCTAG GTTGACCTTTGAAAAGTCCATTTTTACTAAAACTCTGAAGACAAATGCACGCTCAGAAGC TGAGATAACATTGCTTGATGGTAATATTGTTGTTTACAAGTTTGTACAAGACCTTCACTT CTTCGTCACTGCCGGAGATGATGAGAATGAGCTAATCATAGCAAATGTGCTACAGGGTTT TGCTGATTCGGTTGGTCTTCTACTCAGGGGTGACGTTGAGAAGAGGACTGCACTTGAGAA CTTGGACTTGATACTTCTCTGCATTGATGAGATTATTGATGGCGGCATAATTCTTGAAAC AGATGCGAATACCATTGCGGGGAAGGTTGCAACCAATGCTGCTGACGGTTCTGTTCCCTT CTCTGAGCAGACAATATCCCAAGCTCTGGCCACAGCCAGGGAACACTTTGCAAGATCTCT TCTGAAGTGAGAAACCACTGCTTCTTCTGTCACCCCTGTTACAACTTGTGTGTGTTTGAG GTCTGGCTACTATGCTATAGGCCTGGTAGCGGTCACTTAACCAGAAGCGCAACTGTGACA GACAGATTTGTCTGGATTCTTCTTAAATGATATGTAATACTATTTTCTCGTCAAATGCAT GCTGCGTGTCGTACATTTTCTGGAGGTATAGAGAAATAATTTTTGACGTTAATCCAATTT CTGCTAAATAACACTCTTCTCAAACCGGAAAGGGCGGATATCGCTTCAACTTTTTTTTTT TTTTTTTGCCTTTCGTTTATTTCTTTACAAGAATTATGTGTGTTCCCAAGCATGAGCCAG AAGTGGCCTTATTGATGAAGCGTTATTGCTAGGGGTGTTATGTTAGGAGATGAACCTCTG AAGTCTTATAGGCAGCCCAAATGTGTGCAAGAGGGATGTTTAGCCTCCCGTACAATAGTC ATTGAGACAAGTGCCGAATATTCTATGTTAGCCTTCACGGGAGAAAAAAATGAAATTAAA GGGACCAGAGGAAAATTGAAGGAAGA
Protein Sequence (182 aa)
>BART1_0-u35721.004 182 150831_barley_pseudomolecules MGEFSKESCPSVKNILLLDSEGKRVAVKYFSDDWPNNASRLTFEKSIFTKTLKTNARSEA EITLLDGNIVVYKFVQDLHFFVTAGDDENELIIANVLQGFADSVGLLLRGDVEKRTALEN LDLILLCIDEIIDGGIILETDANTIAGKVATNAADGSVPFSEQTISQALATAREHFARSL LK