- Transcript BART1_0-u30923.013
- Transcript IDBART1_0-u30923.013
- Gene IDBART1_0-u30923
Barley RTD
Exon Structure of BART1_0-u30923.013
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 594110003 | 594109300 | - |
| chr4H | 2 | 594110196 | 594110116 | - |
| chr4H | 3 | 594111156 | 594111023 | - |
| chr4H | 4 | 594111612 | 594111468 | - |
| chr4H | 5 | 594112446 | 594112174 | - |
| chr4H | 6 | 594112801 | 594112592 | - |
| chr4H | 7 | 594112961 | 594112873 | - |
| chr4H | 8 | 594113869 | 594113771 | - |
| chr4H | 9 | 594115363 | 594115181 | - |
| chr4H | 10 | 594116068 | 594115458 | - |
| chr4H | 11 | 594116645 | 594116575 | - |
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 | 36.109 | 14.4821 | 23.1978 |
| morex | ETI | 19.3554 | 16.9839 | 14.786 |
| morex | LEA | 6.8534 | 7.72734 | 15.4511 |
| morex | EPI | 16.0608 | 22.9796 | 18.9458 |
| morex | ROO | 14.3407 | 10.9856 | 4.83968 |
| morex | ROO2 | 21.9916 | 17.8902 | 18.76 |
| morex | NOD | 25.1968 | 22.5103 | 32.7902 |
| morex | RAC | 16.5918 | 23.255 | 19.5089 |
| morex | INF1 | 21.5529 | 17.8194 | 31.931 |
| morex | INF2 | 0 | 2.55056 | 0.0000000436512 |
| morex | CAR5 | 0 | 1.87731 | 0.0031652 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 22.1052 | 22.2888 | 20.1579 |
| morex | LOD | 25.0946 | 28.1771 | 19.8123 |
| morex | PAL | 20.5113 | 18.391 | 18.1478 |
| morex | SEN | 19.3834 | 12.1843 | 16.7377 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g06950.1 | +1 | 0.0 | 813 | 451/690 (65%) | protein|ubiquitin carboxyl-terminal hydrolase domain containing protein, expressed |
| TAIR PP10 | AT3G47910 @ ARAPORT AT3G47910.2 @ TAIR |
+1 | 1e-157 | 501 | 283/634 (45%) | Symbols: | Ubiquitin carboxyl-terminal hydrolase-related protein | chr3:17674737-17681444 REVERSE LENGTH=1607 |
| BRACH PP3 | Bradi1g74000.4.p | +1 | 0.0 | 1039 | 525/660 (80%) | pacid=32803973 transcript=Bradi1g74000.4 locus=Bradi1g74000 ID=Bradi1g74000.4.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 (2600 bp)
>BART1_0-u30923.013 2600 150831_barley_pseudomolecules TAGGATTTGAGCTGGAGTGATCAATACATTGTTCGCCAGGACAGTGCAGATGAGGAAACA TCAGAGCAAGCTCAGACTCTTGTTGATTGTGATGACTTTGACGGCAAACTTTCACTAAGT GATGAGTACTCAAATGAGCAAGAGGAAGAGCTTAGGCATAGAGTACAACTTGAAGCAGAG GAAAGAAAACTGGAGGAAACATTGGAGTACCAAAGGCGGATAGAGGAGGAGGCAAAGCAG AAGCATCTTGCCGAACAGTCCAGAAGTACTTCGTCAGCTCCTGATATTGGGACAAATGGT TATTCAACTGATGTAAATTCAAGCGTGCATCAGGATAACCATCAAAGTGCACCCAATAAT GTCTCACCTGCTTATCTTGAAGGGATAAAGTTTGGTGATTTTCGCTTTCCTAAAGTTCCC TCGCGGGAAAAGAATTCTAGTTCCGATTTTTGTGGTGTGGACCTGCCACAAAAGACTGAG AACAATCGCAGGGAGAAACCAAATGGACTGTGCTCTCCTGGAGCACATGCATTAACCAGC AACAATGTGGACTTCACTAAGCCAGCACTGAAAATGAACGGAGTTGGGAAATATGCTCAG AATACAAAACTTGCAACTAATCCTCTCATCCAAAGGTCTAAGAGCAGCACTAGCCAACCA CATAAGAAATACATCCAAGGTTGTGCTGTTCATAATGGTGATGATAGTGCATCTAGTCGA CAAAATGGTACAGCAGCTCTAAGATGGAGCAGTTCTGGCAAAGCAGCTGACTATTCTAGT AACAGTTATCAGGATGGAAGACAAAATGAGTTGCCACCTGTGCTTTCTTCGGATGATCCA TGGAATGCCAACAAAGCTGAGAAAGCTGACAAGGGGGCAATCTCACCTGCAATTGTATGT ATCGAGGATGATTCTGACAAAAGGTTCGAAGAAGACCTCAGAAAAGCAGTGCACCAAAGC CTCGCAGGCACTTCAAATGGGAAAGAAGTGTATGGGGCTGGCCTTAAAAATGCTGCTGGA GAATACAACTGTTTCCTGAATGTGATTATCCAGTCATTATGGCATTTGAAGCGGTTTCGA CACGAGTTCCTTAAAACATCATCACTGCATAAGCATATTGAAGATCCTTGTGCTGTCTGT GCATTATATAATATATTCGTTGACTTGAGCAAAGCATCTGAGGGGCAAGGAGAAGCTGTT GCACCTACTTCTTTGAGGATAGCTTTGAGCAAATCCTATCCTAACAACAGGTTCTTTCAG GAGGGACAAATGAATGATGCATCTGAGGTATTGGGTGTGATCTTTGAGTGCTTGCATAAG TCGTACACTTCTCGGGCTGAGTGCCATGCTAAATCTCACGAGGGCAATTCTATCGGCTCA TGGGACTGTGCAAGCGATTTTTGCATTGCACATTGTCTTTTTGGAATGGATGTCTATGAA CGGATGAACTGCCACAATTGCGGATTAGAGTCTAGACGACTTAAGTATACCTCATTCTTC CACAATATCAATGCTAGTTCACTTCGAACTGCAAAGATGATGTGCCTAGATCCATTTGAT GATCTTTTGAAGACTGTGATAATGAATGATCAGCTAGCTTGTGATCCTGACGTTGGCGGT TGCGGAAAACCGAATCATATACACCACATTCTTTCTAGTTCCCCTCATGTTTTTACAGTT GTTTTGGGATGGCAGAACAGCAAAGAGAGTGTTGATGACATAGCTGCAACCTTGGCTGGT ATTTCGACTGAGATAGACATCAGTGTTTTCTACCGTGGTCTAGATCGAGGAAGCAAACAT TTTCTTGTGTCAGTGGTTTGTTACTATGGGCAGCATTATCATTGCTTTGCTTTCGAGGAT GAGCACTGGGTCATGTATGATGACCAGACTGTTAAGGTTATTGGTAGCTGGGATGATGTG GTCATTATGTGTGAGAAAGGTCATTTACAACCTCAAGTGCTCTTCTTTGAAGCTGCAAAT TAATTTTCTTCAAAGTTCAAGGGTGCTGTGCTGTGCTGTGCTGTGCCGTGGTGTGGTTAA CATGTCTTCCGAGATATAGGTTTTCCCGGTGACTGAGAAGGTTAGCGATAGAATACAAAA TTCGTTTTGAGCTATGGGGGATAATGGTGGTAATTTCAGCAGTTGCACTTGCCTGTCGGT TTTGTCGAGCCCTGCCTTAAATAAATGGTCGTCCGAGCCTTTACTAAAAGGAGAGAAGTG GTGATATATATATTTTCCTTTTGGACTTTGGATATAGCCTGACCCCATATCCTGTCGAAT GCGATTTTGCCGTGGAGGACTGTAGCGGGGATAACTCTACTCGATCATGTGCTGCCCCAG AGAAATTATTCATGAGTGCTGCTGAATTTGCTAGAAGCTTATCAATATATACGGTTTTTT TGTGCTTACGATGTGGAGGAATGTTGTACTGTGTGTGACGAAGGGCGGGGGGTATCAAAG AAAATGGATGCTGTCATTTTTCTTTTTGTTGCAAATTCCTGGGAGGGGGTTTCTTATCAT CTGTAGTGACAAAGTTGTATTATCTCAGAATGTTGTGAAGCCTGTTTTCGCTGGCCATGA CGAACACGTAAAGTTATTGC
Protein Sequence (469 aa)
>BART1_0-u30923.013 469 150831_barley_pseudomolecules MNGVGKYAQNTKLATNPLIQRSKSSTSQPHKKYIQGCAVHNGDDSASSRQNGTAALRWSS SGKAADYSSNSYQDGRQNELPPVLSSDDPWNANKAEKADKGAISPAIVCIEDDSDKRFEE DLRKAVHQSLAGTSNGKEVYGAGLKNAAGEYNCFLNVIIQSLWHLKRFRHEFLKTSSLHK HIEDPCAVCALYNIFVDLSKASEGQGEAVAPTSLRIALSKSYPNNRFFQEGQMNDASEVL GVIFECLHKSYTSRAECHAKSHEGNSIGSWDCASDFCIAHCLFGMDVYERMNCHNCGLES RRLKYTSFFHNINASSLRTAKMMCLDPFDDLLKTVIMNDQLACDPDVGGCGKPNHIHHIL SSSPHVFTVVLGWQNSKESVDDIAATLAGISTEIDISVFYRGLDRGSKHFLVSVVCYYGQ HYHCFAFEDEHWVMYDDQTVKVIGSWDDVVIMCEKGHLQPQVLFFEAAN