- Transcript BART1_0-u34851.002
- Transcript IDBART1_0-u34851.002
- Gene IDBART1_0-u34851
Barley RTD
Exon Structure of BART1_0-u34851.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 280032568 | 280031114 | + |
| chr5H | 2 | 280032882 | 280032720 | + |
| chr5H | 3 | 280033483 | 280033320 | + |
| chr5H | 4 | 280033853 | 280033780 | + |
| chr5H | 5 | 280034038 | 280033955 | + |
| chr5H | 6 | 280034628 | 280034140 | + |
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 | 0.98222 | 1.68265 | 3.80116 |
| morex | LEA | 0.550877 | 0.149827 | 0.199257 |
| morex | EPI | 5.69722 | 2.50362 | 5.06509 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.0534979 | 0.0295631 | 0 |
| morex | RAC | 2.54664 | 1.79888 | 0.576665 |
| morex | INF1 | 0.0185242 | 0 | 0.0176119 |
| morex | INF2 | 0 | 0 | 1.16726 |
| morex | CAR5 | 1.13317 | 0.00000431269 | 0.391946 |
| morex | CAR15 | 0.872203 | 0.545113 | 0.781478 |
| morex | LEM | 0 | 0 | 3.03312 |
| morex | LOD | 0.443167 | 0.106728 | 0 |
| morex | PAL | 2.32687 | 1.03623 | 0.989304 |
| morex | SEN | 4.4199 | 0.678316 | 0.854637 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os12g31000.1 | +2 | 4e-162 | 471 | 269/426 (63%) | protein|pumilio-family RNA binding repeat domain containing protein, expressed |
| TAIR PP10 | AT1G78160 @ ARAPORT AT1G78160.1 @ TAIR |
+2 | 1e-87 | 265 | 127/228 (56%) | Symbols: APUM7, PUM7 | pumilio 7 | chr1:29407900-29410184 FORWARD LENGTH=650 |
| BRACH PP3 | Bradi4g07100.1.p | +2 | 0.0 | 599 | 317/409 (78%) | pacid=32788499 transcript=Bradi4g07100.1 locus=Bradi4g07100 ID=Bradi4g07100.1.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 (2429 bp)
>BART1_0-u34851.002 2429 150831_barley_pseudomolecules GGATAGATAGCCCAACCAACGCCTGCCCATCCTTCCCCTCCATTTGCAAATTTGGATCTT GTTCCATTCCAACAAATATCCTGCGCATGGGGAGATATTTTCTTTGCGCTGGCCAGGGTC ACTCACAAGTGGGTCCCAAAGTGCACCGGATGTCTGCCTCTAGAGACCCAACAAAAGCGT ATTTTAAGGGAGGGAAGAGGTCACTGGACGAGAGTGGGCCAAGTCATATGTGTGTGCAGC CAGAAATAGGTGTTTGTGAACCACCGAAGATATTTGGGCTGAGATATTATCTATTTTTGT ATTTCCTTTTTTGTTTTCATTTTCGGAGTTGTAGTAGTAATAGAAATGTTTTTTAAGGGT CTAAATATCTGATGTTGAAATAAAAAGTCGGAAAGTGCTTACCCCAAAACAAGAAAATCA GACCAGGTAATAACCTTTCAAAAGAAAAGATTTAAAAGAAGAAGAAAAAAAGCACTCCTC TCACCGGCATCAGTCCTCACTACTTTCGCGCTATCCTTATATAAAAGCACCCCCTCTGCT CTCTCCTCCTCCCACTCCTGCATGCCTCAACGAACCATCTCCAGGAAAACACCTCACCCC AATCCAACCCCAAACCAATCCTCTCCACAAACAAATCTAACAGAATTCCCCCACTGATTT TCTCATCGAGATTCGATCAAGATAGTAGTTGGAGATGAAGCTGGACAGGGAGATGGAGAT GCTCCTCAACGAGATCCCTCTCCTCCTCCACGGCGACGTCCTCGGCTGCAGCGAGCCAGC CGCCGCCGAGACCGACGCCGGCGCCGTCGACTTCGCTTATCTCATCCAAGAACTCGGCGA GATGGGGTTCGTCGAGGACGACGACGACGACGACAGTTTCCTTTACCCAAGGAAGGCCAG CTCATCTCCGACGAGCAACCTCCATTTCATGGACGCTGAGAATTTCGTGGCGTCGCATCC CTTCTCCATGGACAAAGACCGCGAGAGGGCTCTTTTCGATCCGTTTCCCTTCTCCAGCAC CTGCTTCGACGCCGCCGTGGGCGACGACTGGGACCTCCTGTGTCGGCCGGTGAGGTCCCG GCTGTGCAAGACGGCGAGGCCGAAGAAGGGTACCTGCAGCAACGGCTGCCAGGCGACGAG CCCCAAGAAGTGCGCGGCGGCGAAGCCGTCCAAGTACGAGAGCCTTGTCGGGCTGCGCGG GTACATGTACCACGTGGCCAGGGACCAGCACGGCTGCCGGTTCCTCCAGCAGCGGCTCGA CGACGGCAAGCGCGAGGTCGATTTCATCTTCACCGGCGTCGCCCGTCACGCCGTCGACCT CATGGTGAACCCATTCGGTAACTACCTCATGCAGAAGCTGCTAGCCGTCTGCAGCGAGGA GCAGAGGATGGGCATCGTGCTGACCCTCACAAAGGAACCCTTCGTGCTCGTCAGGATCTC TCTCAATGTACATGGGACAAGGGCGGTTCAGAAGCTGATTGAAAGCTTGAAGGCAAGGGA GGAGATTCAGCTCGTCGTCGCAGCTCTGCGCCCCGGGTTCCTGGAGCTCATAAAGGATCC TAATGGTAATCATGTCGTGCAGAAGTGCTTGCAATCGTTCGGGGCCGATGATAACAAGCC GATCTTCGATGCTGCTGCTATTTACTGCCTTGATATTGGGATGCAATGCCATGGCTGCTG CGTCCTACAGCGGTGTATCGCGCGTTCGACTGGTGAGCACAAGGAGAAGCTGGTTGCCGC GATCGCTCGCAATGGGTTCGAACTTGCACAGGATGCCTATGGAAACTATGTTGTTCAGTA TGTGATAGAACTAAAGGTCGCTGCTGCAAATGCAAGTCTGGCACAACAGTTTGAAGCTCC TTGCTGCGCCGCAGTTCGAGCGGTTGCTTCTGCACCCTTACGCAAACTATGTAGTCTACG CAGCACTTCAGAATTCCAAGGGCTCTCTACACTCTGCACTGACCAACGCGATCCGGCCTC ACGTGGAGCTACTCAGGACCAGCCCATACTGCAAGAGGATCTACTCTCGAGCTTTGCTGA AAAAGTGATGGTCTGATGAGACCATCTCACCATGTGTAACAATAAAGATAGTTTGTCTTG TGCTATTTTTTCGGATTCAAAAGGGATAAAAGTGATCTCACCATGTAGATCTTGTATAGA TCAAAATTTATTTGGTCATGTACTTCTATGTGCACCTTTATTTGATGCACTCTTCCGTTG CCATAATCCATCTGGAATGGTAAGTTCCGATCTAACAAATCGTCATATAGATGTTGATGC ACGTACACAATATTGGTGATGTTTCTTGTAACTTAATGTTTGCATTTTTTTTTGCCCTGC AATTGCTCAACCGAATGCCAAAACATGAAGGCAAATAACTGATTTGCAGTCTAAGGAAAG TTACGTGTGACTTTTTCGTAATACATCAC
Protein Sequence (453 aa)
>BART1_0-u34851.002 453 150831_barley_pseudomolecules MKLDREMEMLLNEIPLLLHGDVLGCSEPAAAETDAGAVDFAYLIQELGEMGFVEDDDDDD SFLYPRKASSSPTSNLHFMDAENFVASHPFSMDKDRERALFDPFPFSSTCFDAAVGDDWD LLCRPVRSRLCKTARPKKGTCSNGCQATSPKKCAAAKPSKYESLVGLRGYMYHVARDQHG CRFLQQRLDDGKREVDFIFTGVARHAVDLMVNPFGNYLMQKLLAVCSEEQRMGIVLTLTK EPFVLVRISLNVHGTRAVQKLIESLKAREEIQLVVAALRPGFLELIKDPNGNHVVQKCLQ SFGADDNKPIFDAAAIYCLDIGMQCHGCCVLQRCIARSTGEHKEKLVAAIARNGFELAQD AYGNYVVQYVIELKVAAANASLAQQFEAPCCAAVRAVASAPLRKLCSLRSTSEFQGLSTL CTDQRDPASRGATQDQPILQEDLLSSFAEKVMV