Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u07987.008

ChromosomeExonStartStopDirection
chr2H12912421729123714+
chr2H22912450529124321+
chr2H32912478129124617+
chr2H42912499229124859+
chr2H52912534429125189+
chr2H62912597429125786+
chr2H72912723029126067+
chr2H82912821229127330+


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
morexEMB00.5994260
morexETI00.01111780
morexLEA0.9554190.1298390.195746
morexEPI0.03811960.0000001247731.96089
morexROO00.140020.320277
morexROO2000
morexNOD0.000002660950.1468160.00675959
morexRAC0.4318220.0480010
morexINF10.00000001273220.000001037340.00000211646
morexINF20.000000006498170.00007716761.06099
morexCAR50.7456650.4178510
morexCAR150.6416200.000000020257
morexLEM1.676641.149030.000608241
morexLOD000.00000000250043
morexPAL00.5723720
morexSEN3.054324.217560.352342



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g49460.2 +2 4e-139 339 189/255 (74%) protein|response regulator receiver domain containing protein, expressed
TAIR PP10 AT5G02810 @ ARAPORT
AT5G02810.1 @ TAIR		 +2 7e-60 219 135/269 (50%) Symbols: PRR7, APRR7 | pseudo-response regulator 7 | chr5:638283-641461 REVERSE LENGTH=727
BRACH PP3 Bradi1g65910.4.p +2 3e-113 294 177/289 (61%) pacid=32794230 transcript=Bradi1g65910.4 locus=Bradi1g65910 ID=Bradi1g65910.4.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 (3380 bp)

>BART1_0-u07987.008 3380 150831_barley_pseudomolecules
CCGATATCTACTCCTCCGCCCCCCTCCCTCGCCTCCCACACCCACCCACACACACAGCAC
ACCCTCCTCGGCTCGACTCGACTCGCCGCCGCCGCCGCAGTCCATGGCCTCGTCGTCCTC
CTCCTGACCGGCAGCAGACCCAAGGTGCGCTCCCGCCCGTCTATGGTCACCCACGCGCTC
TGTTTCCGCTCGATTGGGGGATCGAATCACCCGTTTCAATCTCAATCTACGTGCGTGTGG
ATCCAGGGCACGCTCAGGCTCTCTCTAGCTGCTGCTAATAGTATGTGTCCGGAAATTGCT
GGAGATTAACCGGCTCGCACGCCTTGTCTGCTACTGCCCCCCCTTATAGCCGCCGGCAGC
TCCATTCCAGGAGACGATTCATTCCGCTGCAGTCTCAACCCCCTTGCTCTTGTGTGTTTT
TTTTGCGTTTTGTTTTTATTGGTTTGGTCCGCTGCTCCGCCGCCGTCGACGACGAACGCC
GTGGGACTCCCGGATGCGACCGAGGCAGCCTCCTCCTAGCGCCATGGACAATCAGCAGCA
GCAGCAGCCGCCGCGCGGGGAGCACGCCGCCCAGCCGCGATGCTGGGAGGAGTTCCTACA
CAGGAAGACCATCCGGGTCCTGCTCGTGGAGACCGACGACTCCACCAGGCAGGTCGTCGC
CGCCCTGCTCCGCCACTGCATGTACCAAGTTATCCCCGTCGAGAACGGCCACCAGGCGTG
GGCGTATCTTCAGGACATGCAGAGCAACATCGACCTTGTTCTCACAGAGGTGTTCATGCA
CGGCGGCCTCTCCGGGATCGACCTGCTCGGCAGGATCATGAACCACGAGGTCTGCAAGGA
CATCCCCGTCATCATGATGTCGTCGCACGATTCCATGGGCACCGTCCTCAGCTGCCTCTC
AAATGGTGCTGCTGACTTCTTGGCCAAGCCGATACGTAAGAACGAGCTTAAGAACCTTTG
GGCGCATGTGTGGCGACGGTCTCACAGCTCCAGTGGCAGTGGTAGTGGAAGTGCCATTCA
GACTCAGAAGTGTACCAAATCAAAGAGCGGCGATGATTCCAATAACAACAGCAATGATCG
CAACGACGATGCCAGCATGGGGCTCAATGCAAGGGATGGCAGCGATAATGGCAGTGGCAC
TCAGAGCTCATGGACAAAGCGTGCCGTTGAGATCGACAGTCCCCAGGACATGTCTCCGGA
TCAGTCAGCCGATCCCCCTGAAGGCACTTGTGCCCATGTGAACCATCCCAAGTCAGAGAT
ATGCAGCAATAGATGGTTACCAGGTACAAATAACAAAAAATGCCAGAAACCAAAAGAAAC
CACTAATGGTATGGTGATGGATTCAAAGGCAAGGAGTTGGAGATAGGAGCCCCTGGTAAT
TTGAACACAGACGATCAATCCTCCCCGAACGAGAGTTCGGTCAAACCAACCGATGGACGG
TGTGAGTATCTGCCACAGAACAATTCCAGTGATACGGTCATGGAGAATTTGGAGGAGCCA
ATTGTTCGAGCTGCTGACTTAATCGGTTCGATGGCCAAAAACATGGACGCCCAACAGGCA
GCAGCTAGAGCCATAGATGCTCCTAACTGCTCCTTACAGGCGTCGGAAGGGAAAGACACG
GACGGCGAGAACGCTATGCCATATCTTGAGCTGAGCCTGAAGAGGTCGAGATCGACCGGG
GAAGGTGCAGGCCCGATCCAGGAGGAACAGAGGAACGTCGTGAGACGGTCAGACCTGTCG
GCATTCACGAGGTGCAAAGCATAATATCAGTGTCCTTTGTGAATCCTGAAATCATCCGTA
TGTTGCATACTAACCGTTTTCATTCTTTGCAAGGTACAATATGTGTGCGGTCTCCAATCA
AGGCGGGGCAGGGTTCGTCGGGAGCTGCTCACCCAACGGCGACAGCTCCGAGGCCGCGAA
AACGGTTGCTGCTCAGATGAAGCAGGGCTCTAACGGCAGCAGCAACAACAATGACATGGG
CTCCACCACGAAGAGCGTGGTGACCAAGCCCTGTGGAAATAATAAGGTTTCGCCCATCAA
CGGCAACACACACACGTCGGCGTTTCATCGTGTGCAGCCATGGACGCCAGCGACAGCAGC
AGGAAAAGACAAGGCTGATGAAGTGAGCAAGAAGAACGTTGCAGCAGCAGCAGCAGCAGC
GAAAGAAATGGGTTGTGAAGCACAGAGCAAACACCCCTGTGCAGCGGCCGATGACGTGAA
TGGTGGATCGGCAGGAGGCACTGCTCAGTCCAGTGTTGTCAATCCTTCGGGTCCGGTTGA
AGGCCATACTGCCAACTATGGTAGCAACTCATTCAGCAATAACAACACCAATAACGGGAG
CACCGCAGCTACCACTGCTGCTGCTGCTGCTGTACATGCTGAGACCGGTGGTGGCGTCGA
CAAAAGAAGTAACATGATGAACATGAAACGGGAGCGCCGTGTGGCCGCCGTGAACAAGTT
CAGAGAGAAGAGAAAAGAGAGGAACTTCGGGAAGAAGGTGCGTTACCAGAGCAGGAAGCG
GCTGGCCGAGCAGCGCCCACGGGTGCGCTGGCAGTTCGTGCGGCAGCCGCCGGCGCCGGC
GACCGTGGAGAGATAACCTCCCGCCACGCACCTAGCTATACCTAGTACTCTACTAATTAG
ACAGCTGATTCTTGTGTCTTTGGCCATGGATCATTGGGAGCTCGTCTCATCTCCTGGAAG
AAGAAGAATAACGAGTGACTCCTCCTGCCTGCCTTAGCGACCTACCATAGAACATGCCGG
CGGAGGAGGACGAGGGCGATTGTACATAGTAGGAGCGTGTGGAGCCGATCAGACAGGCTC
CCGCTCTTGAATGTAGCAGCAATTGACCAATCAATGTCTGAGCCTCTAGAATGGTAGTAT
GAGTGAGTATTGTGCTGTACACTTGTCATCAGCTTGGCCATGGCGGCAGCCTTGTCAGGT
GTCATCAATCAACGCATATTTGTGGTTTCTTTCTAGTTACCGGGCAGACATCATCATCGT
ACTTGTTGCAAATCTGTCTAACCTGTGTCGGCATCACGCGACATGTGGAAGTTTTGTTGC
ACATTGTCTTTCATTTTAAAAGAAGAAGAAGAAGAAGAAGTAGAAGAAGAAGGTGAAGAC
CGCTGAGACGAAACCGCATTTGTAGATTCTTTACTACTACTACGGTGAAGTGCTCCCTGC
GTTTCCTATCCAAGCGTTGTAGCATGCACTCGTCTTGCTTCAGCATCCTTGCGCGGCGGA
CTCCAGCCTTTCGTCGACGAACAAGCACGAATCTTGGCTGGTGCTGGTGCTGGTGCAGAA
CACTTGAGAATGTACCGGGGGGACGAAGGAACCGGATCCTGTAGAGGACCACACGGGTAA
ATCCGTAACCGGTGGACGAG



Protein Sequence (290 aa)

>BART1_0-u07987.008 290 150831_barley_pseudomolecules
MRPRQPPPSAMDNQQQQQPPRGEHAAQPRCWEEFLHRKTIRVLLVETDDSTRQVVAALLR
HCMYQVIPVENGHQAWAYLQDMQSNIDLVLTEVFMHGGLSGIDLLGRIMNHEVCKDIPVI
MMSSHDSMGTVLSCLSNGAADFLAKPIRKNELKNLWAHVWRRSHSSSGSGSGSAIQTQKC
TKSKSGDDSNNNSNDRNDDASMGLNARDGSDNGSGTQSSWTKRAVEIDSPQDMSPDQSAD
PPEGTCAHVNHPKSEICSNRWLPGTNNKKCQKPKETTNGMVMDSKARSWR