- Transcript BART1_0-u43238.010
- Transcript IDBART1_0-u43238.010
- Gene IDBART1_0-u43238
Barley RTD
Exon Structure of BART1_0-u43238.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 64215270 | 64214579 | - |
| chr6H | 2 | 64215646 | 64215404 | - |
| chr6H | 3 | 64216573 | 64216523 | - |
| chr6H | 4 | 64217552 | 64217463 | - |
| chr6H | 5 | 64219227 | 64219027 | - |
| chr6H | 6 | 64219737 | 64219387 | - |
| chr6H | 7 | 64219961 | 64219846 | - |
| chr6H | 8 | 64220925 | 64220808 | - |
| chr6H | 9 | 64221068 | 64221008 | - |
| chr6H | 10 | 64222305 | 64221836 | - |
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 | 0.00000000283273 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0.0503933 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0.617286 | 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 | 0.180737 | 0.000820279 |
| morex | LOD | 0 | 0.227036 | 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 | +1 | 0.0 | 691 | 421/750 (56%) | protein|Homeobox domain containing protein, expressed |
| TAIR PP10 | AT4G29940 @ ARAPORT AT4G29940.2 @ TAIR |
+1 | 2e-60 | 218 | 142/430 (33%) | Symbols: PRHA | pathogenesis related homeodomain protein A | chr4:14648346-14652710 REVERSE LENGTH=769 |
| BRACH PP3 | Bradi3g03747.3.p | +1 | 0.0 | 981 | 528/750 (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 (2393 bp)
>BART1_0-u43238.010 2393 150831_barley_pseudomolecules AAAGGACTCAGTCGGATGTGATACTATCAAGTTCTGACAATGAATAATTCAGACAAGAAG TCGGTATGCTCCATTCCTAGAAGATCATCAGAACGTAGGAAACCGTCCTCTTCTGAGTTG GTTTCTTCAGCAAAAAGGCCAACTCGCCACAACACCTCCAGCAGTTATAAGCCAGATCAT TGTTCTCCTCCCAAGAGAACAGTAAGAACAGTCAGGAATGTTAATCTGGCAAAATATGTA AAGAACAAGTATTATCGTAGTCCTCTGAGCAAGCGGCAGGCTTCAAATGTTGCTACTGGA AAAACTGCAACAGGACCAGTCAGGAGGAGGAACCGGAAACGGAGAAGGCACAACACTGAT TGTGACGAGGCAAGTCGCATGGAAAGAAGGGCGAGCTATTTGCTGGTCAAAATAAAAACG GAGCAGAATTTAATAGATGCATACTCTGGAGATGGCTGGAATGGGCACAGTTCAAGTGGG AGCATGGAAGATTCCGTGATGCCTCCAGATGAGTCTGTTAACCCTGATAATACCATATGT TCAAGATGCAAATCTCCTGAATCAGTTCCCAACAATAAATTTATCTTCTGTGAAGGGCCC TGCAAAATGGCGTACCATCAGAAATGTTCAGAACCTCCTCTAGACAAAAGTCTTCCTACT GGTGGTCCTGGATGGCTTTGTAAATTCTGTTTGTGCAAGATGAAAATTTTAGAAGCTGTT AATGCACATTTGGGAATGAGCCTTACAGTGATGTGTCCCTCTAAAGATATTTTTAAGGAA GCAACTGAACAGATGGACTCTGAGGATGGACTAGGAGAGGATTGGTTATCTGAGTATTCA GGTGATGAGGACTATGACCCTGAAGAAAATGACTTCACAAGCAGCAGCCTGGATAGTGGT GAAGAAAGGATATCTGATCAGTCCAATTGTTCAGGAAGTCCGCTTTATTCTCCAAACGAT GATATTCCAGGCTTTATATCAGCAGATTTCACTGATGCGGAAGGATTCTACCACACCAAT TCAAATTTAGGAATTGATTCTGGGGATGATGATGCTGCCGAGATGCTTACCTACCAAAGG CCAAAGAAAGAGGTTGATTATAAAAGACTTAATGAGGAAATGTTTGGAAAGCTGACTGAC AATGAAAAGCAGAGTGAAGATGAAGATTGGGGTACTAGTAATAAGAGAAAGAAAAGAAGA GTGGATTCAGCTGGTGTTGGAGTTAAGTCTGCCGAGGGTTTCTCAGATGTAAAATCAAAT GAGAAAGTCCAACCGCAGAGGAGAAAACTTTTCAGAATTCCTCCTGAGGCAGTTCAGGTA CTACGCAAATCTTTTGCTGAAAGCGAGCTTCCAACCCGGGAGGTGAAAGAGAATCTCTCA ACAGAATTGGGTATTTCATTTGAAAAGATTGACAAGTGGTTCAAAAATACAAGGTGTGCT GCTCTCAGAGATCGGAAGGCTGAAGGAAATAGCCGTGTTGCTGGCCCCAGCAAAAGATCG AGACGGAGTGCAGGGAAATCTGGAAGTTCAGGCAAGGTTGATTCAGTGGACAATTCATAT CTTCTTCCCGCGTCTGAAATCATCAGTGTACCTACACATCCACAAGGGATTCCTGAGAGG AAGCCCGAATCAACCAGTAGAACTGTGAGGGGGCGGGTACACGATAAAGGAGCTCCCTTG TGCCTGACCGCCAAAGTCAAGGAGAGTACATCACCTACAACCAAGCCTGTCTTGAACACA CACCCTACTCATCTAGCAGATCGCATCATCAACACTGAGCATAGAGCTGTCTCTCAGGAG GACACAGGGCCCTCCGATGACCCTTTCTTCGATGCGATCCTATCCTATCCCACCATCAAC ACAAGCGACAGAGCTGCCTCTCGGGATGATCCGGTGGCCTTCGAGGACGACCCTTTCCTG GACGTGATGCTAGCAAACCGCGACATCTATACCGAGGAGAGAGTCGCTTCTCACGAGGAC GTGAGGCGGACTTCCAGCGACCAGCCTTTCCTGGATGTGATCCAGAACGTGTGCGGACTC GAGCATAGGCTGCAGAGACTGAAGGGGGACATGCTATCATCATCAGCAGCACCAGGCGGC GCTGGAACCACAGAGCGCGACCTGCAGAGCCAACTAGTGGTTCTCGTGCCAACCGCCGAG CTGAAGGACAAATCACAGCCTGGCATCTGAAATTCCGGGTGCGGATGCGACGCTCCGTTT GCGTGTTGTCGATAGGAGTTACTAAAACATATAGAAGAAATAGTGTAGAGAAGGAGAAGA GAAAGAAAAGTAGTGGCTCTAGTCTAGGGTTCTAGCCGACAAGGGGCCTCAACCGTGGTC GTTACTGTGTGTCACATTGAAGTGCGTCTTCGTTGTTACTTAGTATACAAGGG
Protein Sequence (716 aa)
>BART1_0-u43238.010 716 150831_barley_pseudomolecules MNNSDKKSVCSIPRRSSERRKPSSSELVSSAKRPTRHNTSSSYKPDHCSPPKRTVRTVRN VNLAKYVKNKYYRSPLSKRQASNVATGKTATGPVRRRNRKRRRHNTDCDEASRMERRASY LLVKIKTEQNLIDAYSGDGWNGHSSSGSMEDSVMPPDESVNPDNTICSRCKSPESVPNNK FIFCEGPCKMAYHQKCSEPPLDKSLPTGGPGWLCKFCLCKMKILEAVNAHLGMSLTVMCP SKDIFKEATEQMDSEDGLGEDWLSEYSGDEDYDPEENDFTSSSLDSGEERISDQSNCSGS PLYSPNDDIPGFISADFTDAEGFYHTNSNLGIDSGDDDAAEMLTYQRPKKEVDYKRLNEE MFGKLTDNEKQSEDEDWGTSNKRKKRRVDSAGVGVKSAEGFSDVKSNEKVQPQRRKLFRI PPEAVQVLRKSFAESELPTREVKENLSTELGISFEKIDKWFKNTRCAALRDRKAEGNSRV AGPSKRSRRSAGKSGSSGKVDSVDNSYLLPASEIISVPTHPQGIPERKPESTSRTVRGRV HDKGAPLCLTAKVKESTSPTTKPVLNTHPTHLADRIINTEHRAVSQEDTGPSDDPFFDAI LSYPTINTSDRAASRDDPVAFEDDPFLDVMLANRDIYTEERVASHEDVRRTSSDQPFLDV IQNVCGLEHRLQRLKGDMLSSSAAPGGAGTTERDLQSQLVVLVPTAELKDKSQPGI