- Transcript BART1_0-u43238.009
- Transcript IDBART1_0-u43238.009
- Gene IDBART1_0-u43238
Barley RTD
Exon Structure of BART1_0-u43238.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 64215270 | 64214559 | - |
| chr6H | 2 | 64215646 | 64215404 | - |
| chr6H | 3 | 64216573 | 64216523 | - |
| chr6H | 4 | 64217552 | 64217463 | - |
| chr6H | 5 | 64219227 | 64219027 | - |
| chr6H | 6 | 64219737 | 64219411 | - |
| chr6H | 7 | 64219961 | 64219846 | - |
| chr6H | 8 | 64220925 | 64220808 | - |
| chr6H | 9 | 64221068 | 64221008 | - |
| chr6H | 10 | 64222301 | 64221836 | - |
| chr6H | 11 | 64223194 | 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 | 0 | 0 | 0 |
| morex | ETI | 0 | 0.244436 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0.117985 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0.00000000150044 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0.0129802 | 0.188049 |
| morex | LOD | 0 | 0.0106578 | 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_Os02g05450.1 | +3 | 0.0 | 673 | 416/750 (55%) | protein|Homeobox domain containing protein, expressed |
| TAIR PP10 | AT4G29940 @ ARAPORT AT4G29940.1 @ TAIR |
+3 | 9e-35 | 142 | 67/180 (37%) | Symbols: PRHA | pathogenesis related homeodomain protein A | chr4:14648346-14652710 REVERSE LENGTH=796 |
| BRACH PP3 | Bradi3g03747.3.p | +3 | 0.0 | 960 | 522/750 (70%) | 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 (2400 bp)
>BART1_0-u43238.009 2400 150831_barley_pseudomolecules GGGCCTCAGCTCTCGGACTCAGTCGGATGTGATACTATCAAGTTCTGACAATGAATAATT CAGACAAGAAGTCGGTATGCTCCATTCCTAGAAGATCATCAGAACGTAGGAAACCGTCCT CTTCTGAGTTGGTTTCTTCAGCAAAAAGGCCAACTCGCCACAACACCTCCAGCAGTTATA AGCCAGATCATTGTTCTCCTCCCAAGAGAACAGTAAGAACAGTCAGGAATGTTAATCTGG CAAAATATGTAAAGAACAAGTATTATCGTAGTCCTCTGAGCAAGCGGCAGGCTTCAAATG TTGCTACTGGAAAAACTGCAACAGGACCAGTCAGGAGGAGGAACCGGAAACGGAGAAGGC ACAACACTGATTGTGACGAGGCAAGTCGCATGGAAAGAAGGGCGAGCTATTTGCTGGTCA AAATAAAAACGGAGCAGAATTTAATAGATGCATACTCTGGAGATGGCTGGAATGGGCACA GTTCAAGTGGGAGCATGGAAGATTCCGTGATGCCTCCAGATGAGTCTGTTAACCCTGATA ATACCATATGTTCAAGATGCAAATCTCCTGAATCAGTTCCCAACAATAAATTTATCTTCT GTGAAGGGCCCTGCAAAATGGCGTACCATCAGAAATGTTCAGAACCTCCTCTAGACAAAA GTCTTCCTACTGGTGGTCCTGGATGGCTTTGTAAATTCTGTTTGTGCAAGATGAAAATTT TAGAAGCTGTTAATGCACATTTGGGAATGAGCCTTACAGTGATGTGTCCCTCTAAAGATA TTTTTAAGGAAGCAACTGAACAGATGGACTCTGAGGATGGACTAGGAGAGGATTGGTTAT CTGAGTATTCAGGTGATGAGGACTATGACCCTGAAGAAAATGACTTCACAAGCAGCAGCC TGGATAGTGGTGAAGAAAGGATATCTGATCAGTCCAATTGTTCAGGAAGTCCGCTTTATT CTCCAAACGATGATATTCCAGGCTTTATATCAGCAGATTTCACTGATGCGGAAGGATTCT ACCACACCAATTCAAATTTAGGAATTGATTCTGGGGATGATGATGCTGCCGAGATGCTTA CCTACCAAAGGCCAAAGAAAGAGGAAATGTTTGGAAAGCTGACTGACAATGAAAAGCAGA GTGAAGATGAAGATTGGGGTACTAGTAATAAGAGAAAGAAAAGAAGAGTGGATTCAGCTG GTGTTGGAGTTAAGTCTGCCGAGGGTTTCTCAGATGTAAAATCAAATGAGAAAGTCCAAC CGCAGAGGAGAAAACTTTTCAGAATTCCTCCTGAGGCAGTTCAGGTACTACGCAAATCTT TTGCTGAAAGCGAGCTTCCAACCCGGGAGGTGAAAGAGAATCTCTCAACAGAATTGGGTA TTTCATTTGAAAAGATTGACAAGTGGTTCAAAAATACAAGGTGTGCTGCTCTCAGAGATC GGAAGGCTGAAGGAAATAGCCGTGTTGCTGGCCCCAGCAAAAGATCGAGACGGAGTGCAG GGAAATCTGGAAGTTCAGGCAAGGTTGATTCAGTGGACAATTCATATCTTCTTCCCGCGT CTGAAATCATCAGTGTACCTACACATCCACAAGGGATTCCTGAGAGGAAGCCCGAATCAA CCAGTAGAACTGTGAGGGGGCGGGTACACGATAAAGGAGCTCCCTTGTGCCTGACCGCCA AAGTCAAGGAGAGTACATCACCTACAACCAAGCCTGTCTTGAACACACACCCTACTCATC TAGCAGATCGCATCATCAACACTGAGCATAGAGCTGTCTCTCAGGAGGACACAGGGCCCT CCGATGACCCTTTCTTCGATGCGATCCTATCCTATCCCACCATCAACACAAGCGACAGAG CTGCCTCTCGGGATGATCCGGTGGCCTTCGAGGACGACCCTTTCCTGGACGTGATGCTAG CAAACCGCGACATCTATACCGAGGAGAGAGTCGCTTCTCACGAGGACGTGAGGCGGACTT CCAGCGACCAGCCTTTCCTGGATGTGATCCAGAACGTGTGCGGACTCGAGCATAGGCTGC AGAGACTGAAGGGGGACATGCTATCATCATCAGCAGCACCAGGCGGCGCTGGAACCACAG AGCGCGACCTGCAGAGCCAACTAGTGGTTCTCGTGCCAACCGCCGAGCTGAAGGACAAAT CACAGCCTGGCATCTGAAATTCCGGGTGCGGATGCGACGCTCCGTTTGCGTGTTGTCGAT AGGAGTTACTAAAACATATAGAAGAAATAGTGTAGAGAAGGAGAAGAGAAAGAAAAGTAG TGGCTCTAGTCTAGGGTTCTAGCCGACAAGGGGCCTCAACCGTGGTCGTTACTGTGTGTC ACATTGAAGTGCGTCTTCGTTGTTACTTAGTATACAAGGGCAGTTGTTACTGGTTTTAAT
Protein Sequence (708 aa)
>BART1_0-u43238.009 708 150831_barley_pseudomolecules MNNSDKKSVCSIPRRSSERRKPSSSELVSSAKRPTRHNTSSSYKPDHCSPPKRTVRTVRN VNLAKYVKNKYYRSPLSKRQASNVATGKTATGPVRRRNRKRRRHNTDCDEASRMERRASY LLVKIKTEQNLIDAYSGDGWNGHSSSGSMEDSVMPPDESVNPDNTICSRCKSPESVPNNK FIFCEGPCKMAYHQKCSEPPLDKSLPTGGPGWLCKFCLCKMKILEAVNAHLGMSLTVMCP SKDIFKEATEQMDSEDGLGEDWLSEYSGDEDYDPEENDFTSSSLDSGEERISDQSNCSGS PLYSPNDDIPGFISADFTDAEGFYHTNSNLGIDSGDDDAAEMLTYQRPKKEEMFGKLTDN EKQSEDEDWGTSNKRKKRRVDSAGVGVKSAEGFSDVKSNEKVQPQRRKLFRIPPEAVQVL RKSFAESELPTREVKENLSTELGISFEKIDKWFKNTRCAALRDRKAEGNSRVAGPSKRSR RSAGKSGSSGKVDSVDNSYLLPASEIISVPTHPQGIPERKPESTSRTVRGRVHDKGAPLC LTAKVKESTSPTTKPVLNTHPTHLADRIINTEHRAVSQEDTGPSDDPFFDAILSYPTINT SDRAASRDDPVAFEDDPFLDVMLANRDIYTEERVASHEDVRRTSSDQPFLDVIQNVCGLE HRLQRLKGDMLSSSAAPGGAGTTERDLQSQLVVLVPTAELKDKSQPGI