- Transcript BART1_0-u53404.010
- Transcript IDBART1_0-u53404.010
- Gene IDBART1_0-u53404
Barley RTD
Exon Structure of BART1_0-u53404.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 387995344 | 387994781 | - |
| chr7H | 2 | 387996154 | 387996027 | - |
| chr7H | 3 | 387996295 | 387996230 | - |
| chr7H | 4 | 387996488 | 387996426 | - |
| chr7H | 5 | 387996671 | 387996577 | - |
| chr7H | 6 | 387996879 | 387996751 | - |
| chr7H | 7 | 387997091 | 387997003 | - |
| chr7H | 8 | 387997326 | 387997189 | - |
| chr7H | 9 | 387997558 | 387997429 | - |
| chr7H | 10 | 387998007 | 387997921 | - |
| chr7H | 11 | 387998194 | 387998096 | - |
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 | 0.130599 | 0.399662 | 0 |
| morex | ETI | 7.68206 | 2.04205 | 5.31939 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.874883 | 0 | 0.34957 |
| morex | ROO | 0.0000000151838 | 0 | 0 |
| morex | ROO2 | 0.000000537161 | 0 | 0.563829 |
| morex | NOD | 0 | 0 | 3.90931 |
| morex | RAC | 1.03229 | 0 | 1.18589 |
| morex | INF1 | 0.550537 | 0.611462 | 0.571403 |
| morex | INF2 | 1.31337 | 1.12622 | 0 |
| morex | CAR5 | 0 | 0.00000000133999 | 5.01114 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.0000000106284 | 3.74792 | 0.107323 |
| morex | LOD | 2.28986 | 0.398406 | 1.10777 |
| morex | PAL | 1.67458 | 0.779741 | 1.58255 |
| morex | SEN | 3.29186 | 0.812258 | 1.13859 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g06050.1 | +1 | 1e-138 | 407 | 229/299 (77%) | protein|OsTOP6A2 - Topoisomerase 6 subunit A homolog 2, expressed |
| TAIR PP10 | AT1G63990 @ ARAPORT AT1G63990.1 @ TAIR |
+1 | 9e-94 | 291 | 161/292 (55%) | Symbols: SPO11-2 | sporulation 11-2 | chr1:23743323-23745351 REVERSE LENGTH=383 |
| BRACH PP3 | Bradi3g16580.1.p | +1 | 1e-158 | 457 | 258/298 (87%) | pacid=32817968 transcript=Bradi3g16580.1 locus=Bradi3g16580 ID=Bradi3g16580.1.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 (1588 bp)
>BART1_0-u53404.010 1588 150831_barley_pseudomolecules GCGGAGGCGGAGGCGGAGGCGGAGGCGGAGGTTCCCGCAGCGTCGCTCTTCGGTGCGGAC TGCCGCCTCTGCTCAGCCGACGTGCTCTCGCCCCCCGAGGTTCGGGCAAGGATCGAGGTG GCGGTGCTCAATTTCCTCGCCTTGCTTTCGTCTCCCTCTTCTCCGTCCATCTCCGTCCTC CCCCTGATTTCCCGCAAGTCCACCAACTGCAGCCTGCGCAGCGGCTTGCTGAGTGATGTT TCATCGGTGTATCTGTCCTACGCCTTCTGCAAGAGGTCGCTAATGAGAGAAAATGATGCC AAGGCATTCGTCAGAGTATGGAAAGTCATGGAGATGTGCTACAAGATCTTGGGCGAAGGG AAGCTTGTCACCCAGCGGGAGTTGTTCTACAAACTACTGTCGGACTCACCCAAGTACTTC AGCTGTCAGCGTCATGTGAATCAAACCATCCAAGATGTTGTTTCATTGCTCCGTTGCACA AGGCAGAGTTTAGGAATCATGGCATCAAGTAGAGGGGCACTGATTGGACGACTTGTGTTG CATGAACCAGAGGAAGAACACATCGATTGTTCCATTCTCGGACCTTCTGGGCATGCCATT ACTGGGGATCTGAACCAATTGAGCAGATTAAATTTGTCTTCAGATGCCCGTTATCTCATT CTAGTGGAGAAGGATGCCATATTTCAGAGGCTGGCTGAAGACCGCTTATATAATCAGCTT CCATGTATCCTGATCACTGCAAAAGGATATCCTGATATCGCAACGAGGTTTATCTTGCAT CGACTGAGCCAGACTTTTCCAAATATGCCAATATTTGCATTAGTGGACTGGGCTCTCTAT ACTGTGTACTTACAAATATGGAAGCATATCAATGGGCTTGGAATCATACAGATACGCTTG CAATGTAAAATGGCTTGGCCTAAGAGGAGATGATCTGCAGCTTATCCCTCAGAGTTCATT CCAAGAGTTGAAACCTCGTGATTTGCAGGTCGCCAAAAGCTTGCTGTCATCTAAGTTTCT TCAGGACACGCACAGAGCGGAGTTGACACGGATGGTCGAGACGGGCACGCGTGCTGAGAT CGAAGCTCTCTATTGCCATGGTTTTGATTTCCTGGGGAAGTTCATCGCCAGGAAGATTGT GCAGGGTGATTACATTTGACAGTGTTTTTTCTCTCTGGCTGTATGGCTCATGATGACGAG GCTACTGGTACAGTAGTGTGAGTGTCTCTGTTAATTGGAGAGCGATATCGCCCATGGCTC ATTATGGCTGGTGAGGTCTGAACTTTGACATGCATAGAACAAAACGGATAGTAAAAGTTC TCCCTCTGAGAGTGGAACGATAGCAAGTAAGCACGGTTGTACTCCAGTATATTCGTTTAG GCGGTCAGGGTAATTCAGTTTCTGGTGTATGCGTATGCCTTCTGCGCTCCCTGACAGTAC TCTCCCCATAAAATTGGCAATCCAAATGTTGCAGGCCTTGGTCGTTCTTTGCTTCCTTTA CTTTCTGAGAGAAGGCCACTACAACGATGCCCTGGAAGCAGAGATCCATGTTGTGGCAGC TGGTATGATAATGCGTGGTAGTGACGGG
Protein Sequence (310 aa)
>BART1_0-u53404.010 310 150831_barley_pseudomolecules AEAEAEAEAEVPAASLFGADCRLCSADVLSPPEVRARIEVAVLNFLALLSSPSSPSISVL PLISRKSTNCSLRSGLLSDVSSVYLSYAFCKRSLMRENDAKAFVRVWKVMEMCYKILGEG KLVTQRELFYKLLSDSPKYFSCQRHVNQTIQDVVSLLRCTRQSLGIMASSRGALIGRLVL HEPEEEHIDCSILGPSGHAITGDLNQLSRLNLSSDARYLILVEKDAIFQRLAEDRLYNQL PCILITAKGYPDIATRFILHRLSQTFPNMPIFALVDWALYTVYLQIWKHINGLGIIQIRL QCKMAWPKRR