- Transcript BART1_0-u44239.004
- Transcript IDBART1_0-u44239.004
- Gene IDBART1_0-u44239
Barley RTD
Exon Structure of BART1_0-u44239.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 180782519 | 180781713 | - |
| chr6H | 2 | 180782974 | 180782908 | - |
| chr6H | 3 | 180783208 | 180783085 | - |
| chr6H | 4 | 180783571 | 180783362 | - |
| chr6H | 5 | 180783770 | 180783666 | - |
| chr6H | 6 | 180786158 | 180785988 | - |
| chr6H | 7 | 180786706 | 180786233 | - |
| chr6H | 8 | 180787333 | 180786860 | - |
| chr6H | 9 | 180787544 | 180787451 | - |
| chr6H | 10 | 180787695 | 180787634 | - |
| chr6H | 11 | 180787865 | 180787778 | - |
| chr6H | 12 | 180788070 | 180788009 | - |
| chr6H | 13 | 180789166 | 180789050 | - |
| chr6H | 14 | 180789626 | 180789266 | - |
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 | 1.24975 | 2.62451 | 2.94158 |
| morex | ETI | 0.353675 | 0.328736 | 0.751376 |
| morex | LEA | 0.666821 | 0.541537 | 0.391018 |
| morex | EPI | 0 | 0.0000507729 | 0 |
| morex | ROO | 0.649872 | 0.854055 | 0.400913 |
| morex | ROO2 | 0.52344 | 0.743279 | 0.784384 |
| morex | NOD | 1.13521 | 0.767188 | 0.626449 |
| morex | RAC | 1.10386 | 0.691264 | 1.00873 |
| morex | INF1 | 2.74163 | 0.84351 | 1.81876 |
| morex | INF2 | 0.99512 | 1.79094 | 1.85662 |
| morex | CAR5 | 3.59993 | 0.862654 | 2.56427 |
| morex | CAR15 | 1.79783 | 1.16411 | 0.99597 |
| morex | LEM | 1.20716 | 0.323374 | 0.717768 |
| morex | LOD | 1.20095 | 0.200223 | 1.68277 |
| morex | PAL | 1.12314 | 0.490021 | 0.995754 |
| morex | SEN | 0 | 0.901964 | 0.392418 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g11820.2 | +2 | 0.0 | 763 | 517/751 (69%) | protein|GTPase-activating protein, putative, expressed |
| TAIR PP10 | AT4G13350 @ ARAPORT AT4G13350.2 @ TAIR |
+2 | 2e-88 | 297 | 219/553 (40%) | Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602 |
| BRACH PP3 | Bradi3g07910.1.p | +2 | 0.0 | 932 | 586/722 (81%) | pacid=32814567 transcript=Bradi3g07910.1 locus=Bradi3g07910 ID=Bradi3g07910.1.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 (3216 bp)
>BART1_0-u44239.004 3216 150831_barley_pseudomolecules AAATCCCCGGCCACATCGCCCCTCTGGATTCTAGACTAGAAAGACCGCCTCCCTCCCGCG GTCCCGCCGCCCGGCGACCGGCTTCAGCCGGTCCACACCCGCAAGTTGACCGCCAGCCGT CGCTCTGCCTTCTTCTCCTCTGCCGGTAAATAAAACCCCACGACGAGGGAAAAACTTTTT TTCTACTAACACGCGCAGCCCCAGCGAAGCAGCTCAGCGGCGACAACAAAAGAGGGGACC CTTTCCGTTGGTCGCCACCGCCAACTCGCCTCGGCCCCCGCTCCTCCGCACGCCCGCGCG GGATCTCGCGCTTGCTCCCCCCCGAGGAGGGCTCTCCCGGTGAGGGCTCGTCGATCGACC GCAGGGTTTGCGGCGGGCGATGGCGAGCCGGGTGAAGGAGGACGAGAAGAACGAGCGGGT AATACGCGGGCTGCTCAAGCTGCCCGCAAACAAGAGGTGCATCAACTGCAACAATTTGGG ACCACAATATGTATGCACAAATTTCTGGACCTTCGTTTGTACCAATTGCAGTGGAGCACA CCGAGAGTTCACGCACCGGGTGAAATCTGTTTCCATGGCTAAATTTACTGCACAAGAAGT CACTGCTCTACAAGGAGGAGGAAATGAGCGTGCTAGAGAAATATTTTTCAAGGAATGGGA TTCTCAGCGCAATCCATACCCTGACAGCAGTAATACGGACAAATTGAGGAATTTCATCAA ATATGTTTACGTGGAACGGCGATATACAGGAGAAAGAAGCTCTGATAGACCACCGAGGGG AAAGGACGATAAGGATGAACATAGCGAAAATAGAAGATCTGATGGAAATCGGGGTGGTTC AAGAAGTCCACCATATAATGAAAGTTACTCTGACCGTCGGAGTTATAGTGGACGGAGTGA TGACAGAAATTCCAGACATTCCTATGGAGAACGTAGTCCTGGCTATGACCAGAATGATTA TAAGAAAAGCCCCCGCCACTTTGAAGTTGTCGACGATAGATCTGGGAAAACAACTCCAGT TCAAAGGTTCGAGGACCGCAGGTTTTCTGAACCACGAAAGCCAGAGACTGGGTCTCCAAA TTACCAGAGAGAAGCCAATGGATCTAGTCCTCCTGTTGTACGGCCAGTGAGGGAGATATT GGGTGATGATGCTCCTCAACTTCGGATTGGTGAACCTCCAAAGCCGAATGTAGCCAGACC GATTGACCCTCCAAAACCAAATGGAGCCAGGACCATTGAACCTCCACCTCAGGCACAGAG GACAGCTACTGCCAGCAGCATTGGTTCTTCCGAGGGGATTTCGGAACAGACGAAGGCAGT AACTCCAGTCAGTTTAATTGATTTTGGTGCAGATCCCGAACCTACTGCATCTGCCCTGCC ATCACAGACAGCCCCTACACCCCAGCAGCAGTCAGTTAATGCACAGCCTATTAACACAAC AGCGCCACAACATGTTCTTGAACAAGGCAGAAGTGCTCCATCAGTGAGCGGCGGTGATTG GGCATCTTTTGATGCTTTTGGCCAGCAACAACAAACACCACAATCAGGCAGCACTGTAAA TCCGCTTGAGTCTGTGCTTGCACAACTATCATTCTCTGAAACACCCTCTGCCTCCAGTAC ATCAGCCTTTTCAACTTCTGTTGATCAGCAAGCAAATGGAGGACAGTCATCCATGATAGA TCCATCACATTCTTCATTATTTGGTCCACCCGTTGGAATCTCAGGCAATCAGGCCTCAAC AGGAATGCCCGTCCAAGGATCTGCAGTTCATCAATCTGCTGTGGCTGCCCCTATGGGTGG TCTTCCATCTCTATTGCCTTCAAATTCTCAAGGAACAAGTGGTATTCAAGAAGCAACGTC TTCTCATGACAGCAAATCCAGTGGGCGGACAGCACTTCCAGTGGATTTCTTTACTTCACT TTATCCATCAGCAACTCCAGCAATGCCTGGCTGGCAGAGAGCTCCCCAGTCTGGAATGGG ATTTGGCATGCAGTATCCTGCCGGAATGTTGCAGGGAATGCAGTCATATCCTCAGGCAGC ATTTTCTCAACCTACATATCAACAGCCTACATATCAGCAACCTATGTATCAGCAACCTAC ATACCAACAACCTACGTATCAACAGCCTGTATATCAGCAAAATGCATATCCCCAACCTGC GAAAGCTTCAAACCCTTTTGACCTCGGAAATGAGGCAGCTCCAATTCAAGCTCACATGCA GTCCCTATCTGGACCACTGGGAGCATCAGCAGGCGCTGCTAACCCAACATTAGTTGGTAA CTCTAGTTTTGGAGTTCCACCTCAGCAGCCTCAGCAGATGTATCAGCCACCTGTACATCA AAACCATTACATGATGCAGCATGTTTCAAACAACATGCCTGAGCAGCTACCTAATGGCAT GCTTCCAAGGCAACAAGGAGGGGCTGGTTCCCTCGGCGTCGGATATGATCAACAAGCTGC CCCTAGGTACTCCCAGCCAAGCACCCCACCTTCATATGGTGCTGTCGGTGGAAATCCTTT TGGGTAAAAAAGGCTTATCAAATGTGGACGTACCATGTTACCTGTTTATGGTATCTTATG TATCTTCAGACCACTGGTGTGTAGTGCCCACTGCCCAGTGAGACCAGAATGCACAAAGCC CTGGAGAAAAATTTGTTTCATATTTACTGGTCATGTGTTCTGTCACTGTAGCTCCGTGTA ACTTGGTCTGGGAGGTGGAAGCGACGTGGTGCATAAGCTTCAGGAGCAGTAGTTCGGTGC TTCTAGCCCCTATTTTCTTGTATATTTGTGTTTGGTGTTCTGTATGCGTTGCCTCCGATG TATATTCACAGAGACCCTATGCCTTGTATGGTTTTTGATTGGGATCTTTCGAGCGGCCCT ATCTGATAGTGTACTTAGCTCAGAATGTTACTTTTAGTCATGCTGGGTATTCAATTTTAA TGTTTATTGCAATGTCGGACTGAAGGTTGTATAACTGTGGTTAATCAGTTGTTTTGGTCT CACGCTATTGCATTACGGATCATTTGGTGGTACGTGTTACCATCTGTTTTTCCTTTCTTC CTGGCATGGTTGTTTTTCTTACTATTCTTAGATTAGAGGAACATTGAGCGACTTATGTGA CCTTGCCCGTGACGGGTGGGCTCCCGATGGTGCTGCTTCGTTCTACCGTGCAGCTCGGTG GCGGTGGCCATGTTGTCCACGCTCGCTTCGGTAACC
Protein Sequence (715 aa)
>BART1_0-u44239.004 715 150831_barley_pseudomolecules MASRVKEDEKNERVIRGLLKLPANKRCINCNNLGPQYVCTNFWTFVCTNCSGAHREFTHR VKSVSMAKFTAQEVTALQGGGNERAREIFFKEWDSQRNPYPDSSNTDKLRNFIKYVYVER RYTGERSSDRPPRGKDDKDEHSENRRSDGNRGGSRSPPYNESYSDRRSYSGRSDDRNSRH SYGERSPGYDQNDYKKSPRHFEVVDDRSGKTTPVQRFEDRRFSEPRKPETGSPNYQREAN GSSPPVVRPVREILGDDAPQLRIGEPPKPNVARPIDPPKPNGARTIEPPPQAQRTATASS IGSSEGISEQTKAVTPVSLIDFGADPEPTASALPSQTAPTPQQQSVNAQPINTTAPQHVL EQGRSAPSVSGGDWASFDAFGQQQQTPQSGSTVNPLESVLAQLSFSETPSASSTSAFSTS VDQQANGGQSSMIDPSHSSLFGPPVGISGNQASTGMPVQGSAVHQSAVAAPMGGLPSLLP SNSQGTSGIQEATSSHDSKSSGRTALPVDFFTSLYPSATPAMPGWQRAPQSGMGFGMQYP AGMLQGMQSYPQAAFSQPTYQQPTYQQPMYQQPTYQQPTYQQPVYQQNAYPQPAKASNPF DLGNEAAPIQAHMQSLSGPLGASAGAANPTLVGNSSFGVPPQQPQQMYQPPVHQNHYMMQ HVSNNMPEQLPNGMLPRQQGGAGSLGVGYDQQAAPRYSQPSTPPSYGAVGGNPFG