- Transcript BART1_0-u34104.002
- Transcript IDBART1_0-u34104.002
- Gene IDBART1_0-u34104
Barley RTD
Exon Structure of BART1_0-u34104.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 153862295 | 153861918 | + |
| chr5H | 2 | 153862536 | 153862411 | + |
| chr5H | 3 | 153863063 | 153862750 | + |
| chr5H | 4 | 153863520 | 153863237 | + |
| chr5H | 5 | 153864517 | 153863622 | + |
| chr5H | 6 | 153864958 | 153864902 | + |
| chr5H | 7 | 153865370 | 153865323 | + |
| chr5H | 8 | 153866696 | 153866177 | + |
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 | 0.000000646309 | 13.8866 | 5.27442 |
| morex | ETI | 6.90085 | 7.30561 | 9.97861 |
| morex | LEA | 6.5549 | 4.42609 | 4.77011 |
| morex | EPI | 4.4572 | 7.68858 | 4.17365 |
| morex | ROO | 0 | 6.83612 | 1.98799 |
| morex | ROO2 | 3.62955 | 2.59371 | 4.52408 |
| morex | NOD | 5.80851 | 6.65531 | 8.39071 |
| morex | RAC | 7.52987 | 8.51603 | 5.94171 |
| morex | INF1 | 8.78923 | 6.79369 | 15.5775 |
| morex | INF2 | 22.9576 | 17.2812 | 14.6886 |
| morex | CAR5 | 10.4137 | 8.93227 | 12.9137 |
| morex | CAR15 | 5.08111 | 3.29228 | 3.7918 |
| morex | LEM | 4.93947 | 5.99065 | 5.33601 |
| morex | LOD | 7.68637 | 7.52289 | 5.23906 |
| morex | PAL | 5.40749 | 7.5565 | 6.11902 |
| morex | SEN | 4.6432 | 5.23342 | 6.88518 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os12g34370.1 | +1 | 0.0 | 813 | 406/450 (90%) | protein|adaptor complexes medium subunit family protein, expressed |
| TAIR PP10 | AT2G20790 @ ARAPORT AT2G20790.2 @ TAIR |
+1 | 0.0 | 531 | 270/449 (60%) | Symbols: | clathrin adaptor complexes medium subunit family protein | chr2:8950162-8952054 REVERSE LENGTH=475 |
| BRACH PP3 | Bradi4g06100.2.p | +1 | 0.0 | 839 | 417/454 (92%) | pacid=32785977 transcript=Bradi4g06100.2 locus=Bradi4g06100 ID=Bradi4g06100.2.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 (2623 bp)
>BART1_0-u34104.002 2623 150831_barley_pseudomolecules GGGAGAACTAAATACAGAGAATCAAACAGGTTATACATCTTAATTTAAAAGCTGCATTTG CTCAATCAGCATTACATGAGTCACGCTTGTGCTAGTCATGTCCGGCTACTACCCTGGCAA ACACGCCCCAAATGACTTGGAATGCGTAAACTTCCAGGGAAGACGAAATCGTTAACAGGG AGGCGGGTTTACGTTCGCGTACTCTTCCTGTCGTCTTCTCTACTGGTCCCTCGGAGTCTC CGGCCATCCCATCCTAGAAACAAGCGCCAAATCCACAGCCACCGCGCGGCCACACCTCCG GCGATCCATGTCCGGCGGTGGGTGCAGCGTCCGCGCAATCTGGATCCTCACGCCAAACGA CGCGGTCGCCTTCTCCAGGCGGTTTGCAGTGGTGGAGAAGCGGTGGCGGGTCGCGTGGGA GGCGGAGGGGGCGGGGAAGGGCGCGGTGATGCCGCTGCCGGCGGACTACGAGGTCGCCAC CGCCTTTGCCAACCGCCGGAGAAGGGAAGGCACGGCCCGTGGCTCTGGTATCCGCACAAG CTTATCATCCGTGGGATCGGATTCCTGGGTCGATGATCCAATCACTCGCCACATTATATC CCTTCAAATTGACAAAGAGGAAGGGGGTGGGTTTATGCTGTGGCCAGTAGTTCTTCAGAA ACGTGGAAGTTATTATGTCCTTGTGCTGCCTTTGGTGGATCCTCAGGCATTTAAAGCGTT CGAGAGCCTACTGAAAAGACCTGACTGCGGGAGTTCAGCCAAAGAGAATGGCAATCTTTC TTCCATTCTGCTCAATCTTCCGTGCATAACAGGGTAATGGCCTTTATGGTTGCGAATGTT ATTGGGGACATAGTTACCGGTGATGTTGCTGAACCAGAGGTGATCGTTACTTCGGGCCCC TCTGTTGGTGGACTGTTAGATTCATTGACTGGAAGCATAGGTATTACAGCCCGGTCAAAA CCTATCGCTGCACCTGTTGCAGCCCCAGTTGCATCAGTTTCTTCGCCTGTTGGTTCTGCT CAATCAGACTCTTTAAAAGGTGGTATAAGACCTTTTGACAAGGAATTACTACGAAGCTTC ATCATCGGTGCCATGCCTTTTGGCACACCTCAGGATCTTAATTATGGCAATGTTTCTTCG ATTAGAACAACCGGGTATTCAGCTGATCCTCTTCCGACAGACCAGAAGCAACCTGCCTGG AAGCCTTACCTATACAAAGGGAGGCAACGGACTCTCTTTTCTAGCCTGGAGACTATAAAC GCTGCACTATATGACCGTGATGATGTGCCAGATTTCCTTTCCGTTTCGGGACAACTAACC TGTAGGGCTGAACTGGAAGGGTTACCTGATGTTTCTTTGCCACTGACTGGGTTAAAAACT GCCCGTGTGGAGGTGTCATCATTCCACCACTGTGTTCAAGCTTCAGAAGCTACTGGTGAT AAGCAATCTCTGCTATTTCAACCACCACTAGGAAATTTCGTTTTGATGCACTATCAAGCT CCATGCAACATCGATCCACCTGTTAAAGGGTTCTATCAGTTATCTATGGTATCTGAGAAT GAAGGTGCTTTTCTATTTAAGCTGAGATTGATGGAGGGCTACAAGTCCCCGTTTCTTATG GAATTTTGCATGGTTACAATGCCATTTCCTCGAAGAAGAGTTGCATCATATGACGGAAAT CCATCAGTTGGGACGGTTTCAATGACAGAGCATTTAATTGAGTGGAGAATTGTGTCAAGT GGCCGGGGCCTCAGTGGTAGGAGCATTGAAGCTACCTTCTCTGGTACTGTTCGATTTCAT CCTAGAACAGCACAGCGAGTAAATTCATCATTTCGGTTGGTCGCAACCACTGCATTTGCT GAAGATAGTGATTGTGAGCAAGATAACACTAAGAATGGTGCCAACTTGGATGACTACCTC ATGGAAAAAATGAACAAAGACCTTCAAGCAGTTGACTTGGAAGAGCCGTTGTCTTGGCAG GCTTATAATTACGCTAAGGTGTCTTTTAAGATTGTTGGTGGCACCCTGTCTGGTCTTATA ATCGACCCAAGATCTGTAACCGTTTACCCTTCTGTCAAAGCCCCAGTGGAATACTCAATG CAGGCCTCTTCTGGAGACTACATACTATGGAATACCTTAGGAAAATGTCCTTCTGCAGCT TTGCCAAAAGAATTATGATTGCCAGTGTTCAATCGCCAGGCACGGTCCTCAACGGTTTTT TGGTCCCACCACAGAGCTGTGCTGGAAGTTTTCTCTTAGTTCTTATAATTAAGGAAATAG TGTTTCAAGTGGGAAACAACAAATCTGTACATCATTTTTGTCAGACAAGTTTGGTATGCT GAGCTTAGATTTCATGGCTCTATGCGATCTCGAATCCATGGTCTTCTCTTCTTAGCAATA ATAAATTTTCTACAACACTGGGATTCTTTCCATTGTATCCAAATTTGATGCTCGTTGTAA TGCTATTTCGATGATCACCGCTTAAATTCATGGTGCGTTGAGAAACTGGAGACGTGCCAA GCATGATCCAGATTTCTTTCTTTGTTCCGTTTAAATATGTTACTCTAGTATAAAGGTTTT CTTCCATTTACTGGTACGTACTCCCTTTGTTCCTAAATATAAG
Protein Sequence (453 aa)
>BART1_0-u34104.002 453 150831_barley_pseudomolecules MAFMVANVIGDIVTGDVAEPEVIVTSGPSVGGLLDSLTGSIGITARSKPIAAPVAAPVAS VSSPVGSAQSDSLKGGIRPFDKELLRSFIIGAMPFGTPQDLNYGNVSSIRTTGYSADPLP TDQKQPAWKPYLYKGRQRTLFSSLETINAALYDRDDVPDFLSVSGQLTCRAELEGLPDVS LPLTGLKTARVEVSSFHHCVQASEATGDKQSLLFQPPLGNFVLMHYQAPCNIDPPVKGFY QLSMVSENEGAFLFKLRLMEGYKSPFLMEFCMVTMPFPRRRVASYDGNPSVGTVSMTEHL IEWRIVSSGRGLSGRSIEATFSGTVRFHPRTAQRVNSSFRLVATTAFAEDSDCEQDNTKN GANLDDYLMEKMNKDLQAVDLEEPLSWQAYNYAKVSFKIVGGTLSGLIIDPRSVTVYPSV KAPVEYSMQASSGDYILWNTLGKCPSAALPKEL