- Transcript BART1_0-u43238.008
- Transcript IDBART1_0-u43238.008
- Gene IDBART1_0-u43238
Barley RTD
Exon Structure of BART1_0-u43238.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 64215270 | 64214497 | - |
| chr6H | 2 | 64215646 | 64215404 | - |
| chr6H | 3 | 64216573 | 64216523 | - |
| chr6H | 4 | 64217552 | 64217463 | - |
| chr6H | 5 | 64219737 | 64219027 | - |
| chr6H | 6 | 64219961 | 64219846 | - |
| chr6H | 7 | 64220639 | 64220542 | - |
| chr6H | 8 | 64220925 | 64220808 | - |
| chr6H | 9 | 64221173 | 64221008 | - |
| chr6H | 10 | 64222301 | 64221836 | - |
| chr6H | 11 | 64223214 | 64223180 | - |
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 | 1.11446 | 3.52276 | 3.66196 |
| morex | ETI | 2.24252 | 0.335634 | 1.28489 |
| morex | LEA | 2.78295 | 3.88991 | 2.67041 |
| morex | EPI | 0.99868 | 1.69025 | 2.38893 |
| morex | ROO | 1.03301 | 0.86761 | 0.895626 |
| morex | ROO2 | 0.595458 | 1.18707 | 0.473268 |
| morex | NOD | 1.47737 | 0.95228 | 0.489533 |
| morex | RAC | 2.17058 | 2.15195 | 1.5557 |
| morex | INF1 | 5.14447 | 3.30938 | 5.47265 |
| morex | INF2 | 5.36325 | 6.98286 | 5.71434 |
| morex | CAR5 | 4.61635 | 3.86662 | 3.70268 |
| morex | CAR15 | 0.464155 | 1.00165 | 0.996155 |
| morex | LEM | 0.492957 | 1.47302 | 1.35643 |
| morex | LOD | 1.56677 | 1.69795 | 1.37288 |
| morex | PAL | 1.43539 | 1.28622 | 1.05969 |
| morex | SEN | 1.19839 | 0.976773 | 1.49523 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g05450.1 | +1 | 0.0 | 471 | 293/561 (52%) | protein|Homeobox domain containing protein, expressed |
| TAIR PP10 | AT4G29940 @ ARAPORT AT4G29940.1 @ TAIR |
+2 | 2e-40 | 136 | 69/132 (52%) | Symbols: PRHA | pathogenesis related homeodomain protein A | chr4:14648346-14652710 REVERSE LENGTH=796 |
| BRACH PP3 | Bradi3g03747.3.p | +1 | 0.0 | 696 | 367/564 (65%) | pacid=32817691 transcript=Bradi3g03747.3 locus=Bradi3g03747 ID=Bradi3g03747.3.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 (2868 bp)
>BART1_0-u43238.008 2868 150831_barley_pseudomolecules CTTGGAGCGGAGATCCACCGGGGCCTCAGCTCTCGGACTCAGTCGGATGTGATACTATCA AGTTCTGACAATGAATAATTCAGACAAGAAGTCGGTATGCTCCATTCCTAGAAGATCATC AGAACGTAGGAAACCGTCCTCTTCTGAGTTGGTTTCTTCAGCAAAAAGGCCAACTCGCCA CAACACCTCCAGCAGTTATAAGCCAGATCATTGTTCTCCTCCCAAGAGAACAGTAAGAAC AGTCAGGAATGTTAATCTGGCAAAATATGTAAAGAACAAGTATTATCGTAGTCCTCTGAG CAAGCGGCAGGCTTCAAATGTTGCTACTGGAAAAACTGCAACAGGACCAGTCAGGAGGAG GAACCGGAAACGGAGAAGGCACAACACTGATTGTGACGAGGCAAGTCGCATGGAAAGAAG GGCGAGCTATTTGCTGGTCAAAATAAAAACGGAGCAGAATTTAATAGATGCATACTCTGG AGATGGCTGGAATGGGCACAGCCGAGAGAAATTAAAGCCAGATAAGGAGCTACAGCGTGC TAAGAAACAGATCATTAAATGCAAAATTGCTATCCGTGATATTATCCATCAACTTGATTT GTATAGTTCAAGTGGGAGCATGGAAGATTCCGTGATGCCTCCAGATGAGTCTGTTAACCC TGATAATACCATATGTTCAAGATGCAAATCTCCTGAATCAGTTCCCAACAATAAATTTAT CTTCTGTGAAGGGCCCTGCAAAATGGCGTACCATCAGAAATGTTCAGAACCTCCTCTAGA CAAAATAGCAAATGGAATTAAAAGATATCTGTAGTTCTGCACTGATGCAAATGATGAAAC TATGTTTTCCAGTACTAAATGATCTCAGTTTGATCTTTATTAAGTCTTCCTACTGGTGGT CCTGGATGGCTTTGTAAATTCTGTTTGTGCAAGATGAAAATTTTAGAAGCTGTTAATGCA CATTTGGGAATGAGCCTTACAGTGATGTGTCCCTCTAAAGATATTTTTAAGGAAGCAACT GAACAGATGGACTCTGAGGATGGACTAGGAGAGGATTGGTTATCTGAGTATTCAGGTGAT GAGGACTATGACCCTGAAGAAAATGACTTCACAAGCAGCAGCCTGGATAGTGGTGAAGAA AGGATATCTGATCAGTCCAATTGTTCAGGAAGTCCGCTTTATTCTCCAAACGATGATATT CCAGGCTTTATATCAGCAGATTTCACTGATGCGGAAGGATTCTACCACACCAATTCAAAT TTAGGAATTGATTCTGGGGATGATGATGCTGCCGAGATGCTTACCTACCAAAGGCCAAAG AAAGAGGTTGATTATAAAAGACTTAATGAGGTGTATTTTGCTAAGCAGAACATTTTTTAT ACTGCAATTCTAGGAACTGCATTTTGAGTTAGCCATGTGTTGTGTGTTAGTTGCACCTTG AGTAAGTTGTTCATCAGCATCAAGTTGGTTCAAAAGGTTGGGACTTTAACTGCTTTTCAC CCTTCACAGGAAATGTTTGGAAAGCTGACTGACAATGAAAAGCAGAGTGAAGATGAAGAT TGGGGTACTAGTAATAAGAGAAAGAAAAGAAGAGTGGATTCAGCTGGTGTTGGAGTTAAG TCTGCCGAGGGTTTCTCAGATGTAAAATCAAATGAGAAAGTCCAACCGCAGAGGAGAAAA CTTTTCAGAATTCCTCCTGAGGCAGTTCAGGTACTACGCAAATCTTTTGCTGAAAGCGAG CTTCCAACCCGGGAGGTGAAAGAGAATCTCTCAACAGAATTGGGTATTTCATTTGAAAAG ATTGACAAGTGGTTCAAAAATACAAGGTGTGCTGCTCTCAGAGATCGGAAGGCTGAAGGA AATAGCCGTGTTGCTGGCCCCAGCAAAAGATCGAGACGGAGTGCAGGGAAATCTGGAAGT TCAGGCAAGGTTGATTCAGTGGACAATTCATATCTTCTTCCCGCGTCTGAAATCATCAGT GTACCTACACATCCACAAGGGATTCCTGAGAGGAAGCCCGAATCAACCAGTAGAACTGTG AGGGGGCGGGTACACGATAAAGGAGCTCCCTTGTGCCTGACCGCCAAAGTCAAGGAGAGT ACATCACCTACAACCAAGCCTGTCTTGAACACACACCCTACTCATCTAGCAGATCGCATC ATCAACACTGAGCATAGAGCTGTCTCTCAGGAGGACACAGGGCCCTCCGATGACCCTTTC TTCGATGCGATCCTATCCTATCCCACCATCAACACAAGCGACAGAGCTGCCTCTCGGGAT GATCCGGTGGCCTTCGAGGACGACCCTTTCCTGGACGTGATGCTAGCAAACCGCGACATC TATACCGAGGAGAGAGTCGCTTCTCACGAGGACGTGAGGCGGACTTCCAGCGACCAGCCT TTCCTGGATGTGATCCAGAACGTGTGCGGACTCGAGCATAGGCTGCAGAGACTGAAGGGG GACATGCTATCATCATCAGCAGCACCAGGCGGCGCTGGAACCACAGAGCGCGACCTGCAG AGCCAACTAGTGGTTCTCGTGCCAACCGCCGAGCTGAAGGACAAATCACAGCCTGGCATC TGAAATTCCGGGTGCGGATGCGACGCTCCGTTTGCGTGTTGTCGATAGGAGTTACTAAAA CATATAGAAGAAATAGTGTAGAGAAGGAGAAGAGAAAGAAAAGTAGTGGCTCTAGTCTAG GGTTCTAGCCGACAAGGGGCCTCAACCGTGGTCGTTACTGTGTGTCACATTGAAGTGCGT CTTCGTTGTTACTTAGTATACAAGGGCAGTTGTTACTGGTTTTAATGGGTTGGAGTTATA TACTTTTCGGGGTTCAAAATGTTTGGTTTGGAACCATGTCGATGTGCA
Protein Sequence (356 aa)
>BART1_0-u43238.008 356 150831_barley_pseudomolecules MFGKLTDNEKQSEDEDWGTSNKRKKRRVDSAGVGVKSAEGFSDVKSNEKVQPQRRKLFRI PPEAVQVLRKSFAESELPTREVKENLSTELGISFEKIDKWFKNTRCAALRDRKAEGNSRV AGPSKRSRRSAGKSGSSGKVDSVDNSYLLPASEIISVPTHPQGIPERKPESTSRTVRGRV HDKGAPLCLTAKVKESTSPTTKPVLNTHPTHLADRIINTEHRAVSQEDTGPSDDPFFDAI LSYPTINTSDRAASRDDPVAFEDDPFLDVMLANRDIYTEERVASHEDVRRTSSDQPFLDV IQNVCGLEHRLQRLKGDMLSSSAAPGGAGTTERDLQSQLVVLVPTAELKDKSQPGI