Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u07987.036

ChromosomeExonStartStopDirection
chr2H12912421729123741+
chr2H22912450529124325+
chr2H32912478129124617+
chr2H42912499229124859+
chr2H52912534429125189+
chr2H62912596929125786+
chr2H72912648429126067+
chr2H82912723029126567+
chr2H92912809829127330+


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
morexEMB000
morexETI000
morexLEA00.000000439510
morexEPI0.000000001108760.000000001261910.00800901
morexROO000
morexROO2000
morexNOD000
morexRAC0.000000002332490.03024960.000346455
morexINF10.2173820.00000008964850.00000648017
morexINF20.002198640.0000004863680.000224775
morexCAR5000.491499
morexCAR15000
morexLEM000.0000000186576
morexLOD000
morexPAL000
morexSEN0.001038230.0000006038410.00000531252



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g49460.2 +1 0.0 648 422/685 (62%) protein|response regulator receiver domain containing protein, expressed
TAIR PP10 AT5G02810 @ ARAPORT
AT5G02810.1 @ TAIR		 +1 7e-73 256 190/454 (42%) Symbols: PRR7, APRR7 | pseudo-response regulator 7 | chr5:638283-641461 REVERSE LENGTH=727
BRACH PP3 Bradi1g16490.7.p +1 0.0 755 477/675 (71%) pacid=32803660 transcript=Bradi1g16490.7 locus=Bradi1g16490 ID=Bradi1g16490.7.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 (3148 bp)

>BART1_0-u07987.036 3148 150831_barley_pseudomolecules
CTCGCCTCCCACACCCACCCACACACACAGCACACCCTCCTCGGCTCGACTCGACTCGCC
GCCGCCGCCGCAGTCCATGGCCTCGTCGTCCTCCTCCTGACCGGCAGCAGACCCAAGGTG
CGCTCCCGCCCGTCTATGGTCACCCACGCGCTCTGTTTCCGCTCGATTGGGGGATCGAAT
CACCCGTTTCAATCTCAATCTACGTGCGTGTGGATCCAGGGCACGCTCAGGCTCTCTCTA
GCTGCTGCTAATAGTATGTGTCCGGAAATTGCTGGAGATTAACCGGCTCGCACGCCTTGT
CTGCTACTGCCCCCCCTTATAGCCGCCGGCAGCTCCATTCCAGGAGACGATTCATTCCGC
TGCAGTCTCAACCCCCTTGCTCTTGTGTGTTTTTTTTGCGTTTTGTTTTTATTGGTTTGG
TCCGCTGCTCCGCCGCCGTCGACGACGAACGCCGTGGGACTCCCGGATGCGACCGAGCCT
CCTCCTAGCGCCATGGACAATCAGCAGCAGCAGCAGCCGCCGCGCGGGGAGCACGCCGCC
CAGCCGCGATGCTGGGAGGAGTTCCTACACAGGAAGACCATCCGGGTCCTGCTCGTGGAG
ACCGACGACTCCACCAGGCAGGTCGTCGCCGCCCTGCTCCGCCACTGCATGTACCAAGTT
ATCCCCGTCGAGAACGGCCACCAGGCGTGGGCGTATCTTCAGGACATGCAGAGCAACATC
GACCTTGTTCTCACAGAGGTGTTCATGCACGGCGGCCTCTCCGGGATCGACCTGCTCGGC
AGGATCATGAACCACGAGGTCTGCAAGGACATCCCCGTCATCATGATGTCGTCGCACGAT
TCCATGGGCACCGTCCTCAGCTGCCTCTCAAATGGTGCTGCTGACTTCTTGGCCAAGCCG
ATACGTAAGAACGAGCTTAAGAACCTTTGGGCGCATGTGTGGCGACGGTCTCACAGCTCC
AGTGGCAGTGGTAGTGGAAGTGCCATTCAGACTCAGAAGTGTACCAAATCAAAGAGCGGC
GATGATTCCAATAACAACAGCAATGATCGCAACGACGATGCCAGCATGGGGCTCAATGCA
AGGGATGGCAGCGATAATGGCAGTGGCACTCAGAGCTCATGGACAAAGCGTGCCGTTGAG
ATCGACAGTCCCCAGGACATGTCTCCGGATCAGTCAGCCGATCCCCCTGAAGGCACTTGT
GCCCATGTGAACCATCCCAAGTCAGAGATATGCAGCAATAGATGGTTACCAGGTACAAAT
AACAAAAAATGCCAGAAACCAAAAGAAACCACTAATGGTGATGGATTCAAAGGCAAGGAG
TTGGAGATAGGAGCCCCTGGTAATTTGAACACAGACGATCAATCCTCCCCGAACGAGAGT
TCGGTCAAACCAACCGATGGACGGTGTGAGTATCTGCCACAGAACAATTCCAGTGATACG
GTCATGGAGAATTTGGAGGAGCCAATTGTTCGAGCTGCTGACTTAATCGGTTCGATGGCC
AAAAACATGGACGCCCAACAGGCAGCAGCTAGAGCCATAGATGCTCCTAACTGCTCCTTA
CAGGCGTCGGAAGGGAAAGACACGGACGGCGAGAACGCTATGCCATATCTTGAGCTGAGC
CTGAAGAGGTCGAGATCGACCGGGGAAGGTGCAGGCCCGATCCAGGAGGAACAGAGGAAC
GTCGTGAGACGGTCAGACCTGTCGGCATTCACGAGGTACAATATGTGTGCGGTCTCCAAT
CAAGGCGGGGCAGGGTTCGTCGGGAGCTGCTCACCCAACGGCGACAGCTCCGAGGCCGCG
AAAACGGTTGCTGCTCAGATGAAGCAGGGCTCTAACGGCAGCAGCAACAACAATGACATG
GGCTCCACCACGAAGAGCGTGGTGACCAAGCCCTGTGGAAATAATAAGGTTTCGCCCATC
AACGGCAACACACACACGTCGGCGTTTCATCGTGTGCAGCCATGGACGCCAGCGACAGCA
GCAGGAAAAGACAAGGCTGATGAAGTGAGCAAGAAGAACGTTGCAGCAGCAGCAGCAGCA
GCGAAAGAAATGGGTTGTGAAGCACAGAGCAAACACCCCTGTGCAGCGGCCGATGACGTG
AATGGTGGATCGGCAGGAGGCACTGCTCAGTCCAGTGTTGTCAATCCTTCGGGTCCGGTT
GAAGGCCATACTGCCAACTATGGTAGCAACTCATTCAGCAATAACAACACCAATAACGGG
AGCACCGCAGCTACCACTGCTGCTGCTGCTGCTGTACATGCTGAGACCGGTGGTGGCGTC
GACAAAAGAAGTAACATGATGAACATGAAACGGGAGCGCCGTGTGGCCGCCGTGAACAAG
TTCAGAGAGAAGAGAAAAGAGAGGAACTTCGGGAAGAAGGTGCGTTACCAGAGCAGGAAG
CGGCTGGCCGAGCAGCGCCCACGGGTGCGCTGGCAGTTCGTGCGGCAGCCGCCGGCGCCG
GCGACCGTGGAGAGATAACCTCCCGCCACGCACCTAGCTATACCTAGTACTCTACTAATT
AGACAGCTGATTCTTGTGTCTTTGGCCATGGATCATTGGGAGCTCGTCTCATCTCCTGGA
AGAAGAAGAATAACGAGTGACTCCTCCTGCCTGCCTTAGCGACCTACCATAGAACATGCC
GGCGGAGGAGGACGAGGGCGATTGTACATAGTAGGAGCGTGTGGAGCCGATCAGACAGGC
TCCCGCTCTTGAATGTAGCAGCAATTGACCAATCAATGTCTGAGCCTCTAGAATGGTAGT
ATGAGTGAGTATTGTGCTGTACACTTGTCATCAGCTTGGCCATGGCGGCAGCCTTGTCAG
GTGTCATCAATCAACGCATATTTGTGGTTTCTTTCTAGTTACCGGGCAGACATCATCATC
GTACTTGTTGCAAATCTGTCTAACCTGTGTCGGCATCACGCGACATGTGGAAGTTTTGTT
GCACATTGTCTTTCATTTTAAAAGAAGAAGAAGAAGAAGAAGTAGAAGAAGAAGGTGAAG
ACCGCTGAGACGAAACCGCATTTGTAGATTCTTTACTACTACTACGGTGAAGTGCTCCCT
GCGTTTCCTATCCAAGCGTTGTAGCATGCACTCGTCTTGCTTCAGCATCCTTGCGCGGCG
GACTCCAGCCTTTCGTCGACGAACAAGC



Protein Sequence (661 aa)

>BART1_0-u07987.036 661 150831_barley_pseudomolecules
MDNQQQQQPPRGEHAAQPRCWEEFLHRKTIRVLLVETDDSTRQVVAALLRHCMYQVIPVE
NGHQAWAYLQDMQSNIDLVLTEVFMHGGLSGIDLLGRIMNHEVCKDIPVIMMSSHDSMGT
VLSCLSNGAADFLAKPIRKNELKNLWAHVWRRSHSSSGSGSGSAIQTQKCTKSKSGDDSN
NNSNDRNDDASMGLNARDGSDNGSGTQSSWTKRAVEIDSPQDMSPDQSADPPEGTCAHVN
HPKSEICSNRWLPGTNNKKCQKPKETTNGDGFKGKELEIGAPGNLNTDDQSSPNESSVKP
TDGRCEYLPQNNSSDTVMENLEEPIVRAADLIGSMAKNMDAQQAAARAIDAPNCSLQASE
GKDTDGENAMPYLELSLKRSRSTGEGAGPIQEEQRNVVRRSDLSAFTRYNMCAVSNQGGA
GFVGSCSPNGDSSEAAKTVAAQMKQGSNGSSNNNDMGSTTKSVVTKPCGNNKVSPINGNT
HTSAFHRVQPWTPATAAGKDKADEVSKKNVAAAAAAAKEMGCEAQSKHPCAAADDVNGGS
AGGTAQSSVVNPSGPVEGHTANYGSNSFSNNNTNNGSTAATTAAAAAVHAETGGGVDKRS
NMMNMKRERRVAAVNKFREKRKERNFGKKVRYQSRKRLAEQRPRVRWQFVRQPPAPATVE
R