- Transcript BART1_0-u44413.010
- Transcript IDBART1_0-u44413.010
- Gene IDBART1_0-u44413
Barley RTD
Exon Structure of BART1_0-u44413.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 210489211 | 210488481 | - |
| chr6H | 2 | 210489368 | 210489301 | - |
| chr6H | 3 | 210489823 | 210489746 | - |
| chr6H | 4 | 210490007 | 210489916 | - |
| chr6H | 5 | 210490160 | 210490092 | - |
| chr6H | 6 | 210490789 | 210490666 | - |
| chr6H | 7 | 210491070 | 210490947 | - |
| chr6H | 8 | 210492067 | 210491949 | - |
| chr6H | 9 | 210493332 | 210493241 | - |
| chr6H | 10 | 210493711 | 210493508 | - |
| chr6H | 11 | 210494944 | 210494825 | - |
| chr6H | 12 | 210495512 | 210495417 | - |
| chr6H | 13 | 210495694 | 210495591 | - |
| chr6H | 14 | 210496656 | 210496647 | - |
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 | 82.0875 | 91.528 | 96.7661 |
| morex | ETI | 40.6896 | 48.8015 | 37.5645 |
| morex | LEA | 46.9121 | 32.6759 | 41.4102 |
| morex | EPI | 31.6307 | 56.182 | 44.2009 |
| morex | ROO | 35.1864 | 48.0099 | 21.4425 |
| morex | ROO2 | 85.864 | 89.2626 | 80.5723 |
| morex | NOD | 50.8177 | 39.0795 | 39.0826 |
| morex | RAC | 93.9021 | 88.3139 | 87.704 |
| morex | INF1 | 94.0738 | 104.534 | 97.1305 |
| morex | INF2 | 63.969 | 75.7078 | 70.2619 |
| morex | CAR5 | 54.5984 | 70.0723 | 60.2586 |
| morex | CAR15 | 11.2908 | 11.9212 | 13.7051 |
| morex | LEM | 55.6571 | 45.9771 | 47.4344 |
| morex | LOD | 136.5 | 101.537 | 125.752 |
| morex | PAL | 75.0731 | 65.5628 | 69.7709 |
| morex | SEN | 53.4585 | 51.926 | 46.5548 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g13110.1 | +1 | 0.0 | 807 | 428/476 (90%) | protein|serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B, putative, expressed |
| TAIR PP10 | AT1G17720 @ ARAPORT AT1G17720.1 @ TAIR |
+1 | 0.0 | 726 | 366/475 (77%) | Symbols: ATB BETA | Protein phosphatase 2A, regulatory subunit PR55 | chr1:6093949-6098065 REVERSE LENGTH=501 |
| BRACH PP3 | Bradi3g08400.3.p | +1 | 0.0 | 858 | 453/475 (95%) | 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 (2031 bp)
>BART1_0-u44413.010 2031 150831_barley_pseudomolecules CTTCTGAGCTTTGACATCATCTCTGCGATCGAGTTTGACAAATCTGGTGATCATCTTGCC ACTGGAGATAGGGGTGGACGTGTAGTTTTGTTTGAAAGAACTGATGCCAGGGGTAATGCC AGTCGGACAGAGCTTGAGAGACAAGATTATTCGGTGCCCAGGCATCCTGAGTTCCGCTAT AAAACTGAATTTCAGAGTCATGAACCTGAGTTCGATTACCTAAAGAGTTTGGAAATAGAG GAGAAAATCAACAAGATCAAGTGGGGCCAAATAGCCAACAATGCACTCTTTATCTTGTCT ACAAATGACAAAACAATCAAGTACTGGAAGGTGCAAGACAAAAAAGTGAAACGAATTTCA GTAATGAATTTGGATACTTCCCAGAGTGCAGACAATGGGACAACTTCTAGTTCGAGTACC AGTAGCTCTAGAGGCCTTCCTAATGGAGGATCCTCAGAAAAGTCATACAATTATGCAAAC AACGATCTGCCATTCCCTCCTGGGGGATATGCATCATTGCGTTTGCCTGTGGTAGTTACA GGCCAAGAGTTAAACCCTGTTGCTAGATGCCGGCGTGTATATGCACACGCCCATGATTAC CATATCAATTCCATTTCAAATAATAGTGATGGTGAGACATTCATATCAGCAGATGATCTG CGAATTAATCTGTGGAATTTGGAAATCAACAGTCAGAGCTTTAACATTGTTGATGTGAAG CCTGTAAACATGGAGGATCTAACTGAGGTGATTACATGTGCGGAGTTCCATCCAACTCAC TGTAATACACTAGCCTATAGTAGCTCAAAGGGCGCTATCAGGCTTATTGACCTGCGGCAA TCAGCACTGTGTGACAACCATTCTAAGCTATTTGAGGAGCATGAAGCACCTGGATCAAAA TCCTTTTTTACGGAGATAATTGCATCCGTTTCAGATATAAAGTTTGCAAGGGATGGACGG CATATTCTTAGTCGTGATTATATGACTCTCAAGTTATGGGATCTCAACATGGATTCAGGC CCAGTAGCAACTTTCCAAGTTCATGAACATTTAAGGCCTAAGCTTTGCGATCTATATGAA AATGATTCAATCTTTGACAAATTTGAATGTTGTCTGAGTGGGGATGGTCATCGTGTTGCG ACTGGCTCTTACAGTAACTTATTTCGTGTTTTTGGTTGTACTCCTGGAAATACCGAGGCA ACCACTTTAGAAGCAAGCAGAAACCCTATGAGGCGTCAGGTTGCTAATCCAACAAGGCCT ACAAGAACACTGACCTCTTTGACCCGTGCTGTGAGGAGAGGGGGTGAAAATGCAGGAGCC GATGGCAATGGGAATTCTAATGACTTCTCAACAAAGTTACTCCATCTTGCGTGGCACCCA ACTGAGAACTCCATTGCGTGTGCTGCTGGAAATAGCTTGTACATGTATTATGCATAGGGA ATGTGCTAGAGAAGATTCACTGTTTTTGGTTTGTGCAACGTGAAAGCTTCGGCCTTGCAC ATGCAACCAGAGAAATGGTGCAGAACATTGTCATCAATTCTGTGATTGGGGGTCGGAAGA GGCGGTTGGCACCCAGGGGATGGATATCCTCCAACTCCAAGCATAGCAGACTATTTCCTT CTGATTCTTTAGTAAATGTGAAACACAAATTCTAATCGCACGATTGTAGCTGCATGTGTA GCCAAAACACCAGCAGTTGGAGGACAGAGCAGAAGATAGCAAGGCTGATTCTAATTTCAC TTGGTCCCAGGAAATATCTGCTTACGGTGGATGTAAGAAATTTTCTTTTCTCTTCATCAA GTGTAATGTAATGCCGCCTAGCCAGGTTTAACCATCTGCTGTCACCAACGGTGAAACATC TGTGGACATAAATTATGACTTGTAGCCCCCCCCTCCCCCCTCTATTTGTTGGTGGTCGAA ACTTACAATAAGTTTGCAGGTGTGACTCAACTCCTGCTGCATGTGATCGGCTATGACCTA AGTTGTATATGCTACATTTTGCCATGCAAAACTCACAACTAATGATATGGA
Protein Sequence (478 aa)
>BART1_0-u44413.010 478 150831_barley_pseudomolecules LLSFDIISAIEFDKSGDHLATGDRGGRVVLFERTDARGNASRTELERQDYSVPRHPEFRY KTEFQSHEPEFDYLKSLEIEEKINKIKWGQIANNALFILSTNDKTIKYWKVQDKKVKRIS VMNLDTSQSADNGTTSSSSTSSSRGLPNGGSSEKSYNYANNDLPFPPGGYASLRLPVVVT GQELNPVARCRRVYAHAHDYHINSISNNSDGETFISADDLRINLWNLEINSQSFNIVDVK PVNMEDLTEVITCAEFHPTHCNTLAYSSSKGAIRLIDLRQSALCDNHSKLFEEHEAPGSK SFFTEIIASVSDIKFARDGRHILSRDYMTLKLWDLNMDSGPVATFQVHEHLRPKLCDLYE NDSIFDKFECCLSGDGHRVATGSYSNLFRVFGCTPGNTEATTLEASRNPMRRQVANPTRP TRTLTSLTRAVRRGGENAGADGNGNSNDFSTKLLHLAWHPTENSIACAAGNSLYMYYA