Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u42531.001

ChromosomeExonStartStopDirection
chr6H12223668822236557+
chr6H22223782522237685+
chr6H32223897422238862+
chr6H42223929222239057+
chr6H52223974922239402+
chr6H62224215722239832+


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


SampleTreatmentRep 1Rep 2Rep 3
morexEMB3.125963.869173.23256
morexETI5.514773.521483.58251
morexLEA3.898153.981774.34433
morexEPI2.582792.007882.3203
morexROO0.7194862.631531.35319
morexROO21.941591.094611.36918
morexNOD1.844550.3836150.199152
morexRAC1.396220.7003950.929925
morexINF128.639914.825816.0877
morexINF213.984410.249417.5365
morexCAR57.30395.328515.27165
morexCAR153.293412.460754.54853
morexLEM2.795132.172410.765347
morexLOD0.3994320.3768010.443988
morexPAL0.5897821.337071.31611
morexSEN8.938787.245545.04043



Homology to Model Species (BLASTX to E-value < 1e-30)

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g03040.1 +3 5e-120 371 220/261 (84%) protein|RNA recognition motif containing protein, expressed
TAIR PP10 AT5G52040 @ ARAPORT
AT5G52040.2 @ TAIR		 +3 1e-83 275 169/289 (58%) Symbols: ATRSP41, RS41, At-RS41 | RNA-binding (RRM/RBD/RNP motifs) family protein | chr5:21131081-21133318 FORWARD LENGTH=357
BRACH PP3 Bradi3g02226.1.p +3 2e-133 406 241/258 (93%) pacid=32814082 transcript=Bradi3g02226.1 locus=Bradi3g02226 ID=Bradi3g02226.1.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 (3296 bp)

>BART1_0-u42531.001 3296 150831_barley_pseudomolecules
CCCCTGCTCACGGGCCACGGACCTGCCCCTGTCTGTCTCCGTCCTCCCCCCGCTCCACTC
GCCGCCGGGTCCGAACCAGCCGCGCCCCCCGTCGAAAACCTAGGGTTCCGCCCTCCCCCG
CCCCCTCCGAAGGTTTGGGGAAGATCTGTTTATACAGCAACACCAACATGAGGCCAATTT
TCTGCGGGAACCTTGACTATGATGCCCGCCAATCTGAAGTCGAGCGTCTTTTTGGCAAAT
ATGGAAGAGTGGAGCGAGTTGACATGAAGACAGGATTTGCGTTCGTCTACATGGAAGATG
AACGTGATGCTGAAGATGCTATCCGTAGACTTGATAGAACTGACTTTGGTAGAACAGGGA
GGAGACTGAGAGTCGAATGGACAAAGGAGGATCGCAGTGGTGGTCGGAAAGGAAATGGAA
AGAGATCTCCAAGCAGCGTGAAACCAACCAAAACCTTGTTTGTGATCAACTTTGATCCAA
TCAACACAAGGACAAGAGATCTGGAGAAGCACTTTGATCTGTATGGCAAGATTGCAAATA
TCAGAATCAGAAGGAACTTTGCATTTGTCCAGTATGAAACACAGGAGGATGCTACTAAAG
CTCTGGACGGTACTAATGGAAGCACTGTGATGGACAGGGTGATTTCTGTTGAGTATGCGC
TTCGTGACGATGATGAAAAAAGGAACGGGTACAGTCCAGACAGGAGAGGAGGCCGTGATA
GGTCTCCTGACAGAAGGGACAATCGTGGTAGGTCGGCAAGTCCTTATGGCAGAGGGCGGG
AAAGGGGCAGCCCAGACTATGGCAGGGGCAGGGAGAGGGGCAGCCCGGACTATGGCAAGG
GCGGTGCCAGAGATAGTCCTGACTATGTCCGTGGTGGAAGCCCGTACGGCGGCAAAGGGG
ATGACAGGGCTAGCCCCAAGTATGACCGTGAACGCCGTGAAGCCAGTCCTGCCTATGACA
GGCGCCGCAGCCGCTCGCCTGCAAGGGAAGATAGGGACTGAAGCTGTACCATGGATGGCT
GCGCTCAATCCTGGGTGCTTCGGACCAAATGGATGCACCGTCCTAGTGCGATGTTCGCTC
AAGTTGGTTATGTTAGGCAGCCAGGAACTTCTGTAATATCTCTCTATTAGCTAGCTCTAG
CTGAATGCTTTGTCGATTTAGTTTGAACTGTGATTGTTAGCTTGAACTTTGTGCAAAGGG
ATTCTTCCGGTGAGACCATTTGCGGAGCGATGAGATGTACCGTGTATCGACCGACAGCAG
TATTCTAGCTTTGCACTTTGGTTATTCTTCCATATGTTCCTATTCTTCACTATTGTTTCT
GCTTGTGTGCTGGTCGACATGGTTGAGGATGGTGACCTTTGAGGAAGATAGAGGCTAATG
TTGTGGTGGTGACGTCCATGGCTTCGGCAACATACTTCTTCTGTACCTAAATAACTATAG
TTCTTTTGTACCTAAATAGTTATAGTTGGGGAGAACTAGGTACTTCTGAAGTAGGAGAGA
GGAGGGGTGGATGATGTGGTGGGAGCTTGGTTTTTATTTATTTATTTTTTGTCAAAGAAA
TGATAGAAAAAATATATTTGATTTAGTTATGTTGATTGATTTTGGTAAATGACAAGTTAT
GATTTGATATTTTTGGCCCTATGATTTGATTCCTTTAGGCGGGTTTTCAGAGTATTAACC
CTGCGCGGCCCAGAAACCTCCCTAAGCCTCGACGACCCATTTGTTTCGTGTGTTTTGCAC
AGTCCAATCCATTTCATCCCCCTTGGATCCCCTCCTATCCACACGTCTTTCAAGCCTCGA
GGGCACACACACAGGGAACACAGGGAAAGAAGGAAAAAAGACAGGAAAAGCAACGCCCTC
GCCGCCCCCGGGGTGTAAATGTTCTCCTCCGCCGGTTCTCCCCGAGATGATTCCTCCCCT
CTCCTTCACTTCTCCATCCCCTCCCCTAACCCTAGGGCCGGCTCTTCTTGCTCCTCATCC
GATACCCAATGGACATGGCTCTGTTGTGGAGTTTGTCTGTATGTCTCTTCTAATTGCAGA
ACACGACATATAGGTTCGGTAGCCTTTAAATATTGGTTGAAATTTAGGTGGCTATTTAGT
TGTTTTTTATCAACATGTAGTGGATTGTATGGATACTCATCTTGGTTTTTTTTCACCCAT
ACACACTCCAGGATAGTACTGGGATCTTTGCTCGAGGTATAGTATTCTCTGAAAGCTTGT
GAAACGAATCTTAGTTGCAATTTTGTGTAGCGAGGTAACTGCAAGGTTCAACCACTGCAC
TTTTGTGTGAAAGCATGATTTTACGCAATACAGATTTTTTTTTCCATGATCAAAGAGGAT
ACAGAGTGTTAGTGTAAAGCAAAACATATCTGCACTTTATTCAGTATTCAGGGAGAGCAC
TGAAGAAGCACTTGCTATTTGTACCAAAAGTAATGCAAACCAATATTAGAAATGTGAATT
CGCACATCTCTGGGAACACTGTGAACTGAATGTTCAGTTTAGTGTTAGTGCTTCGGTTCA
GTGTACTGAATTTTCAGTGTTAGTGCTTCAGTTCAATGTACTAAATTTTCAGTGTTAGTG
CTTCAGTTCAGTGTTCAAACCATTGTACTGGTGTTGCGTGTTAACTGAATTTTCAGCTGA
GATATGTGTGCTCACTTGTATTCTTGACTTCATTGTTGGCAGAGGGTAGTTATATCTGAT
ATCTAGCGTATATGTCTCTAGTTGAATTGGTTCTAGTTTAATTTATGGCAGCATTGGTTC
TCCATTCTCACATTATATGTGTCATCTATTCTATTCTGCTAGTACTATCTTCCATACTCA
AAAGCATTATCCCGTGTTGCATTATCTTTGTTGGACATTCAAAAGTTGGAAAACTGATCG
TGAGCAATTGCACAAGTACTTTGTGTTGCTGGATACAAATATTTTGTGGCTGTGTAAAAT
GTTGTTGTTGTGAAAGATCACACATGGCATGTTGATTCCGAGTAATGATGTTACAAGAAT
TTATATTGTTGTTGCGATATACTCCATGCATGTGATGAGATACCGATTCAAATTCATGCA
AATTTATGTTGTTGCTACAAAATTATTCCCCTGTAGCAGATCATATTTTTATTTGGACAC
CTTTACAATTTTGTAGCAAGCTCTTCTTGATAAAAAGATTGCATTTTTGAACGCTTGCAC
AATATTTGCATTCCCTGCCTACCAAACATTTGTTTCATATGAAGAGGATTGTGATTAGAG
GGGTTTGAGGGGTTTCAAGTGGATTTGAGGGGATTGGGTGGAAGAGGGGAATTCAC



Protein Sequence (332 aa)

>BART1_0-u42531.001 332 150831_barley_pseudomolecules
PAHGPRTCPCLSPSSPRSTRRRVRTSRAPRRKPRVPPSPAPSEGLGKICLYSNTNMRPIF
CGNLDYDARQSEVERLFGKYGRVERVDMKTGFAFVYMEDERDAEDAIRRLDRTDFGRTGR
RLRVEWTKEDRSGGRKGNGKRSPSSVKPTKTLFVINFDPINTRTRDLEKHFDLYGKIANI
RIRRNFAFVQYETQEDATKALDGTNGSTVMDRVISVEYALRDDDEKRNGYSPDRRGGRDR
SPDRRDNRGRSASPYGRGRERGSPDYGRGRERGSPDYGKGGARDSPDYVRGGSPYGGKGD
DRASPKYDRERREASPAYDRRRSRSPAREDRD