- Transcript BART1_0-u44413.006
- Transcript IDBART1_0-u44413.006
- Gene IDBART1_0-u44413
Barley RTD
Exon Structure of BART1_0-u44413.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 210489368 | 210488423 | - |
| chr6H | 2 | 210489823 | 210489746 | - |
| chr6H | 3 | 210490007 | 210489916 | - |
| chr6H | 4 | 210490160 | 210490092 | - |
| chr6H | 5 | 210490789 | 210490666 | - |
| chr6H | 6 | 210491070 | 210490943 | - |
| chr6H | 7 | 210492067 | 210491949 | - |
| chr6H | 8 | 210493332 | 210493241 | - |
| chr6H | 9 | 210493711 | 210493508 | - |
| chr6H | 10 | 210494944 | 210494825 | - |
| chr6H | 11 | 210495516 | 210495417 | - |
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 | 0.368861 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.36497 | 0.440769 | 0.446576 |
| morex | ROO | 0 | 0.403576 | 0 |
| morex | ROO2 | 0.336479 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0.388341 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0.519252 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0.814564 | 0.357649 | 0.744815 |
| morex | CAR15 | 0 | 0.218407 | 0 |
| morex | LEM | 0.223136 | 0 | 0 |
| morex | LOD | 0.285992 | 1.47326 | 0.401189 |
| morex | PAL | 0.366956 | 0 | 0 |
| morex | SEN | 0 | 0.259397 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g13110.1 | +2 | 0.0 | 431 | 220/254 (87%) | protein|serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B, putative, expressed |
| TAIR PP10 | AT1G17720 @ ARAPORT AT1G17720.1 @ TAIR |
+2 | 4e-170 | 380 | 185/254 (73%) | Symbols: ATB BETA | Protein phosphatase 2A, regulatory subunit PR55 | chr1:6093949-6098065 REVERSE LENGTH=501 |
| BRACH PP3 | Bradi3g08400.3.p | +2 | 0.0 | 472 | 235/253 (93%) | pacid=32816172 transcript=Bradi3g08400.3 locus=Bradi3g08400 ID=Bradi3g08400.3.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 (2072 bp)
>BART1_0-u44413.006 2072 150831_barley_pseudomolecules GCAGAATGCCAGTCGGACAGAGCTTGAGAGACAAGATTATTCGGTGCCCAGGCATCCTGA GTTCCGCTATAAAACTGAATTTCAGAGTCATGAACCTGAGTTCGATTACCTAAAGAGTTT GGAAATAGAGGAGAAAATCAACAAGATCAAGTGGGGCCAAATAGCCAACAATGCACTCTT TATCTTGTCTACAAATGACAAAACAATCAAGTACTGGAAGGTGCAAGACAAAAAAGTGAA ACGAATTTCAGTAATGAATTTGGATACTTCCCAGAGTGCAGACAATGGGACAACTTCTAG TTCGAGTACCAGTAGCTCTAGAGGCCTTCCTAATGGAGGATCCTCAGAAAAGTCATACAA TTATGCAAACAACGATCTGCCATTCCCTCCTGGGGGATATGCATCATTGCGTTTGCCTGT GGTAGTTACAGGCCAAGAGTTAAACCCTGTTGCTAGATGCCGGCGTGTATATGCACACGC CCATGATTACCATATCAATTCCATTTCAAATAATAGTGATGGTGAGACATTCATATCAGC AGATGATCTGCGAATTAATCTGTGGAATTTGGAAATCAACAGTCAGAGCTTTAACATTGT TGATGTGAAGCCTGTAAACATGGAGGATCTAACTGAGGTGATTACATGTGCGGAGTTCCA TCCAACTCACTGTAATACACTAGCCTATAGTAGCTCAAAGGGCGCTATCAGGCTTATTGA CCTGCGGCAATCAGCACTGTGTGACAACCATTCTAAGCTGTTAATTTGAGGAGCATGAAG CACCTGGATCAAAATCCTTTTTTACGGAGATAATTGCATCCGTTTCAGATATAAAGTTTG CAAGGGATGGACGGCATATTCTTAGTCGTGATTATATGACTCTCAAGTTATGGGATCTCA ACATGGATTCAGGCCCAGTAGCAACTTTCCAAGTTCATGAACATTTAAGGCCTAAGCTTT GCGATCTATATGAAAATGATTCAATCTTTGACAAATTTGAATGTTGTCTGAGTGGGGATG GTCATCGTGTTGCGACTGGCTCTTACAGTAACTTATTTCGTGTTTTTGGTTGTACTCCTG GAAATACCGAGGCAACCACTTTAGAAGCAAGCAGAAACCCTATGAGGCGTCAGGTTGCTA ATCCAACAAGGCCTACAAGAACACTGACCTCTTTGACCCGTGCTGTGAGGAGAGGTAAGT GTCTCTTGTATCATAGATCTGATTATTTCTGTCACATAGGTAGAGTAGATTGACGTACTT CTCCTTGTGCAAATGTTGCACAGGGGGTGAAAATGCAGGAGCCGATGGCAATGGGAATTC TAATGACTTCTCAACAAAGTTACTCCATCTTGCGTGGCACCCAACTGAGAACTCCATTGC GTGTGCTGCTGGAAATAGCTTGTACATGTATTATGCATAGGGAATGTGCTAGAGAAGATT CACTGTTTTTGGTTTGTGCAACGTGAAAGCTTCGGCCTTGCACATGCAACCAGAGAAATG GTGCAGAACATTGTCATCAATTCTGTGATTGGGGGTCGGAAGAGGCGGTTGGCACCCAGG GGATGGATATCCTCCAACTCCAAGCATAGCAGACTATTTCCTTCTGATTCTTTAGTAAAT GTGAAACACAAATTCTAATCGCACGATTGTAGCTGCATGTGTAGCCAAAACACCAGCAGT TGGAGGACAGAGCAGAAGATAGCAAGGCTGATTCTAATTTCACTTGGTCCCAGGAAATAT CTGCTTACGGTGGATGTAAGAAATTTTCTTTTCTCTTCATCAAGTGTAATGTAATGCCGC CTAGCCAGGTTTAACCATCTGCTGTCACCAACGGTGAAACATCTGTGGACATAAATTATG ACTTGTAGCCCCCCCCTCCCCCCTCTATTTGTTGGTGGTCGAAACTTACAATAAGTTTGC AGGTGTGACTCAACTCCTGCTGCATGTGATCGGCTATGACCTAAGTTGTATATGCTACAT TTTGCCATGCAAAACTCACAACTAATGATATGGATTCTTGAGTATTCATGTCTGGCTTTT GCAATATCTATGCATTTTTGCAATCCTCTTTA
Protein Sequence (255 aa)
>BART1_0-u44413.006 255 150831_barley_pseudomolecules QNASRTELERQDYSVPRHPEFRYKTEFQSHEPEFDYLKSLEIEEKINKIKWGQIANNALF ILSTNDKTIKYWKVQDKKVKRISVMNLDTSQSADNGTTSSSSTSSSRGLPNGGSSEKSYN YANNDLPFPPGGYASLRLPVVVTGQELNPVARCRRVYAHAHDYHINSISNNSDGETFISA DDLRINLWNLEINSQSFNIVDVKPVNMEDLTEVITCAEFHPTHCNTLAYSSSKGAIRLID LRQSALCDNHSKLLI