- Transcript BART1_0-u18088.001
- Transcript IDBART1_0-u18088.001
- Gene IDBART1_0-u18088
Barley RTD
Exon Structure of BART1_0-u18088.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30433440 | 30432927 | + |
| chr3H | 2 | 30434781 | 30434706 | + |
| chr3H | 3 | 30434918 | 30434860 | + |
| chr3H | 4 | 30435171 | 30435032 | + |
| chr3H | 5 | 30435776 | 30435721 | + |
| chr3H | 6 | 30435931 | 30435855 | + |
| chr3H | 7 | 30436066 | 30436021 | + |
| chr3H | 8 | 30436328 | 30436204 | + |
| chr3H | 9 | 30436515 | 30436448 | + |
| chr3H | 10 | 30436719 | 30436632 | + |
| chr3H | 11 | 30437404 | 30436873 | + |
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 | 9.28183 | 7.25073 | 8.2472 |
| morex | ETI | 11.8385 | 15.5693 | 22.0162 |
| morex | LEA | 3.57607 | 3.85761 | 6.96836 |
| morex | EPI | 6.12154 | 8.69496 | 6.86051 |
| morex | ROO | 11.6981 | 7.14805 | 3.52313 |
| morex | ROO2 | 18.0719 | 14.7068 | 16.2591 |
| morex | NOD | 7.99565 | 16.3385 | 10.7035 |
| morex | RAC | 18.4672 | 19.1137 | 18.5392 |
| morex | INF1 | 7.19993 | 9.07108 | 7.31973 |
| morex | INF2 | 11.1537 | 11.912 | 12.0477 |
| morex | CAR5 | 8.61742 | 8.27089 | 9.4696 |
| morex | CAR15 | 2.16694 | 1.45122 | 2.64361 |
| morex | LEM | 12.6709 | 12.3617 | 14.0685 |
| morex | LOD | 19.9028 | 25.9008 | 19.5857 |
| morex | PAL | 13.7127 | 11.5488 | 12.9449 |
| morex | SEN | 7.56263 | 10.3257 | 11.4151 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g05680.1 | +2 | 2e-116 | 345 | 160/194 (82%) | protein|geranylgeranyl transferase type-1 subunit beta, putative, expressed |
| TAIR PP10 | AT2G39550 @ ARAPORT AT2G39550.1 @ TAIR |
+2 | 3e-144 | 422 | 213/321 (66%) | Symbols: ATGGT-IB, GGB, PGGT-I | Prenyltransferase family protein | chr2:16501666-16504144 FORWARD LENGTH=375 |
| BRACH PP3 | Bradi2g03310.1.p | +2 | 0.0 | 572 | 267/304 (88%) | pacid=32775578 transcript=Bradi2g03310.1 locus=Bradi2g03310 ID=Bradi2g03310.1.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 (1781 bp)
>BART1_0-u18088.001 1781 150831_barley_pseudomolecules GGCTTCTCTCATTTCCCCGTGCGAGAGGTTGAAGATAGGAGGGATGAGGACGACGGGATA TGACGTCTCGGAGGGGCTAAATCTGACGGCTGAAACTCGACCGACCCAACGGTTGGACCG GCGCGCGAGCGCAGATTGCTTCGATACCCGCGCTCGAAAAACAAAAACATGGTGTAGTGC GGCACGGTCGGAAACCGGACGCAAGTGGGACCGCCATCTCGTCCCCATCTCCCAAAGTCC CAAGCGCGTCAGGATTCGTGCTCCCGTACCGGCCCCGACGAATCGGCGGCGACGCGGAGG CCGTCACTTCTCCTTCCACGGCGGCGACCGGCCGGAGATGGGGGACCAGGAGGCGGAGGA GGCGGCGGCCGGGTTCGCGCGCGCGCGCCACGCGGCGTTCCTGGAGATGATGTCGTCCGA GCTCCCCGACGGCTACGCCACGCAGGAGGTCAACCACCTCACCCTCGCCTACTTCGCCGT CGCCGGCCTCTCCCTCCTCCGGGAGCTCCACCGGGTTAACAAGGATCAAATTGCCAAATG GGTTTTGTCGTTTCAAGTACACCCTGAGGCAAACGACGACTTACATAATGGGCAATTTTT TGGATTCTGTGGCTCTAGAACAACTAAATTTCCCTCAAATTTGGTGAAGGACCCTTGCCA TAATGGTAGCCATCTAGCAAGCACTTATTCTGCTCTTGCTATATTGAAGATTGTAGGTTA TGATGTACTAAACCTTGATAGCAAGGTTCTTCTAGCGTCGATGAAAAAACTCCAGCAATC AGATGGAAGCTTCATGCCTACTCATATTGGTGCGGAAACAGACCTACGCTTTGTATACTG TGCAGCTGCGATCTGCTCAATGCTGAAAGACTGGTCAGGAATGGACAAGGAAAAGGCCAA GGAATACATCCTTAATTGTCAGTCATATGACGGTGGCTTTGGCATGGTTCCCGGTTCAGA ATCTCATGGTGGGGGAACTTTCTGTGCTGTTGCGGCCCTATATCTAATGGGTTTCATTCA AGTCGATTTGGCATCGAACTTACGAGAGTCTGCGCCGATCGACGTACAATTGCTATTGGA GTGGTGTCTTCAGAGGCAAGCAGCAGACGGGGGGTTTCAGGGCAGAAGAAACAAGCCAAG CGATACATGCTATGCTTTCTGGATCGGAGGCGTGTTGAAGATGATTGGCGCCTACCACTT GATCGACCACGCCGCTCTGCGGGAGTTTCTGCTCACCTGCCAGACACGTTACGGAGGCTT CTCGAAGTTCCCCGACGACGGGCTCCCGGACATCTACCATTCGTACTACGGGCTCGCTGC CCTCTCGTTGCTGGGTGAGGAGAAGGAGGTCGAGCCGCTCTGCGCCGAGCTGGGGATCAT CGCCGCTGCGCTGTAGCTAGCCGAGGCACCGATCCGATCTTCCCCGTTGTACCCTCCTTG TAACTCACAGTTTCTCTGCGACCAACGGATGCTGTAAGACCGATCCACCATTACAGCGTG CGGCTGAAAACATGGAAGCGATTTTTTTGCATGAGGTTTCTTGATTGATCCGTGCTTTAG GCGTGTTTTGTTATTTTTCGGTTGCGACGGGCCTGATTTGCCCAGACAGTCGTGCTCTAT TCCCAAGTTTGTTGCGTTGGCTGAGCTGTTGGGTCTGCTCGAAAGCTACTGATCACGGCG CGGGGAACGAAGATCTTGTGCCTGGATTTGAGTTGGTGTTTGAAAATTGCGTGCGCGATG AAGAAATGGCGCGTGTGACGGGGAAGCAAGCTGGATTCGGG
Protein Sequence (464 aa)
>BART1_0-u18088.001 464 150831_barley_pseudomolecules ASLISPCERLKIGGMRTTGYDVSEGLNLTAETRPTQRLDRRASADCFDTRARKTKTWCSA ARSETGRKWDRHLVPISQSPKRVRIRAPVPAPTNRRRRGGRHFSFHGGDRPEMGDQEAEE AAAGFARARHAAFLEMMSSELPDGYATQEVNHLTLAYFAVAGLSLLRELHRVNKDQIAKW VLSFQVHPEANDDLHNGQFFGFCGSRTTKFPSNLVKDPCHNGSHLASTYSALAILKIVGY DVLNLDSKVLLASMKKLQQSDGSFMPTHIGAETDLRFVYCAAAICSMLKDWSGMDKEKAK EYILNCQSYDGGFGMVPGSESHGGGTFCAVAALYLMGFIQVDLASNLRESAPIDVQLLLE WCLQRQAADGGFQGRRNKPSDTCYAFWIGGVLKMIGAYHLIDHAALREFLLTCQTRYGGF SKFPDDGLPDIYHSYYGLAALSLLGEEKEVEPLCAELGIIAAAL