- Transcript BART1_0-u53404.008
- Transcript IDBART1_0-u53404.008
- Gene IDBART1_0-u53404
Barley RTD
Exon Structure of BART1_0-u53404.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 387995344 | 387994718 | - |
| chr7H | 2 | 387996154 | 387996027 | - |
| chr7H | 3 | 387996327 | 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 | 387998251 | 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 | 3.2026 | 0.749945 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 1.05837 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0.0000000733179 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 2.52002 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0.00307373 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 5.40876 | 0 | 2.84277 |
| morex | CAR15 | 1.09057 | 0 | 0.000247826 |
| morex | LEM | 0 | 0.00000000244009 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g06050.1 | +1 | 0.0 | 605 | 321/384 (84%) | protein|OsTOP6A2 - Topoisomerase 6 subunit A homolog 2, expressed |
| TAIR PP10 | AT1G63990 @ ARAPORT AT1G63990.1 @ TAIR |
+1 | 2e-156 | 452 | 235/380 (62%) | Symbols: SPO11-2 | sporulation 11-2 | chr1:23743323-23745351 REVERSE LENGTH=383 |
| BRACH PP3 | Bradi3g16580.1.p | +1 | 0.0 | 652 | 348/383 (91%) | 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 (1740 bp)
>BART1_0-u53404.008 1740 150831_barley_pseudomolecules GCAGGGCCAGCTGCCATATCGTCCTCCGATGTAGGAAGTGCAGCGCGGATGGCGATGGCG GAGGCGGAGGCGGAGGCGGAGGCGGAGGTTCCCGCAGCGTCGCTCTTCGGTGCGGACTGC CGCCTCTGCTCAGCCGACGTGCTCTCGCCCCCCGAGGTTCGGGCAAGGATCGAGGTGGCG GTGCTCAATTTCCTCGCCTTGCTTTCGTCTCCCTCTTCTCCGTCCATCTCCGTCCTCCCC CTGATTTCCCGCAAGTCCACCAACTGCAGCCTGCGCAGCGGCTTGCTGAGTGATGTTTCA TCGGTGTATCTGTCCTACGCCTTCTGCAAGAGGTCGCTAATGAGAGAAAATGATGCCAAG GCATTCGTCAGAGTATGGAAAGTCATGGAGATGTGCTACAAGATCTTGGGCGAAGGGAAG CTTGTCACCCAGCGGGAGTTGTTCTACAAACTACTGTCGGACTCACCCAAGTACTTCAGC TGTCAGCGTCATGTGAATCAAACCATCCAAGATGTTGTTTCATTGCTCCGTTGCACAAGG CAGAGTTTAGGAATCATGGCATCAAGTAGAGGGGCACTGATTGGACGACTTGTGTTGCAT GAACCAGAGGAAGAACACATCGATTGTTCCATTCTCGGACCTTCTGGGCATGCCATTACT GGGGATCTGAACCAATTGAGCAGATTAAATTTGTCTTCAGATGCCCGTTATCTCATTCTA GTGGAGAAGGATGCCATATTTCAGAGGCTGGCTGAAGACCGCTTATATAATCAGCTTCCA TGTATCCTGATCACTGCAAAAGGATATCCTGATATCGCAACGAGGTTTATCTTGCATCGA CTGAGCCAGACTTTTCCAAATATGCCAATATTTGCATTAGTGGACTGTTAGATTCCTTCC CAATTCAGGAACCCTGCAGGGCTCTCTATACTGTGTACTTACAAATATGGAAGCATATCA ATGGGCTTGGAATCATACAGATACGCTTGCAATGTAAAATGGCTTGGCCTAAGAGGAGAT GATCTGCAGCTTATCCCTCAGAGTTCATTCCAAGAGTTGAAACCTCGTGATTTGCAGGTC GCCAAAAGCTTGCTGTCATCTAAGTTTCTTCAGGACACGCACAGAGCGGAGTTGACACGG ATGGTCGAGACGGGCACGCGTGCTGAGATCGAAGCTCTCTATTGCCATGGTTTTGATTTC CTGGGGAAGTTCATCGCCAGGAAGATTGTGCAGGGTGATTACATTTGACAGTGTTTTTTC TCTCTGGCTGTATGGCTCATGATGACGAGGCTACTGGTACAGTAGTGTGAGTGTCTCTGT TAATTGGAGAGCGATATCGCCCATGGCTCATTATGGCTGGTGAGGTCTGAACTTTGACAT GCATAGAACAAAACGGATAGTAAAAGTTCTCCCTCTGAGAGTGGAACGATAGCAAGTAAG CACGGTTGTACTCCAGTATATTCGTTTAGGCGGTCAGGGTAATTCAGTTTCTGGTGTATG CGTATGCCTTCTGCGCTCCCTGACAGTACTCTCCCCATAAAATTGGCAATCCAAATGTTG CAGGCCTTGGTCGTTCTTTGCTTCCTTTACTTTCTGAGAGAAGGCCACTACAACGATGCC CTGGAAGCAGAGATCCATGTTGTGGCAGCTGGTATGATAATGCGTGGTAGTGACGGGGCG ATAGAGGCTGTTTGGATTGAGCCAGGGTCCGCCTCGCCGACCGCGGGCGCGCCAATTTAT
Protein Sequence (278 aa)
>BART1_0-u53404.008 278 150831_barley_pseudomolecules MAEAEAEAEAEVPAASLFGADCRLCSADVLSPPEVRARIEVAVLNFLALLSSPSSPSISV LPLISRKSTNCSLRSGLLSDVSSVYLSYAFCKRSLMRENDAKAFVRVWKVMEMCYKILGE GKLVTQRELFYKLLSDSPKYFSCQRHVNQTIQDVVSLLRCTRQSLGIMASSRGALIGRLV LHEPEEEHIDCSILGPSGHAITGDLNQLSRLNLSSDARYLILVEKDAIFQRLAEDRLYNQ LPCILITAKGYPDIATRFILHRLSQTFPNMPIFALVDC