Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u07987.004

ChromosomeExonStartStopDirection
chr2H12912385729123713+
chr2H22912421729123960+
chr2H32912450529124321+
chr2H42912478129124617+
chr2H52912499229124859+
chr2H62912534429125189+
chr2H72912596929125780+
chr2H82912648429126067+
chr2H92912723029126567+
chr2H102912821229127330+


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
morexEMB00.6937750.0186859
morexETI000
morexLEA1.0367900.0000394045
morexEPI000
morexROO000
morexROO20.061523200.231231
morexNOD00.00000001941510
morexRAC000
morexINF10.8628321.192432.25565
morexINF201.749783.95146
morexCAR51.328010.00001015711.54102
morexCAR150.71226400.356258
morexLEM00.00001345970
morexLOD000
morexPAL000.000000000577089
morexSEN0.0000000012841800



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g49460.2 +3 0.0 655 424/685 (62%) protein|response regulator receiver domain containing protein, expressed
TAIR PP10 AT5G02810 @ ARAPORT
AT5G02810.1 @ TAIR		 +3 2e-71 253 191/456 (42%) Symbols: PRR7, APRR7 | pseudo-response regulator 7 | chr5:638283-641461 REVERSE LENGTH=727
BRACH PP3 Bradi1g16490.7.p +3 0.0 751 477/677 (70%) 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 (3198 bp)

>BART1_0-u07987.004 3198 150831_barley_pseudomolecules
CCCGATATCTACTCCTCCGCCCCCCTCCCTCGCCTCCCACACCCACCCACACACACAGCA
CACCCTCCTCGGCTCGACTCGACTCGCCGCCGCCGCCGCAGTCCATGGCCTCGTCGTCCT
CCTCCTGACCGGCAGCAGACCCAAGGGCACGCTCAGGCTCTCTCTAGCTGCTGCTAATAG
TATGTGTCCGGAAATTGCTGGAGATTAACCGGCTCGCACGCCTTGTCTGCTACTGCCCCC
CCTTATAGCCGCCGGCAGCTCCATTCCAGGAGACGATTCATTCCGCTGCAGTCTCAACCC
CCTTGCTCTTGTGTGTTTTTTTTGCGTTTTGTTTTTATTGGTTTGGTCCGCTGCTCCGCC
GCCGTCGACGACGAACGCCGTGGGACTCCCGGATGCGACCGAGGCAGCCTCCTCCTAGCG
CCATGGACAATCAGCAGCAGCAGCAGCCGCCGCGCGGGGAGCACGCCGCCCAGCCGCGAT
GCTGGGAGGAGTTCCTACACAGGAAGACCATCCGGGTCCTGCTCGTGGAGACCGACGACT
CCACCAGGCAGGTCGTCGCCGCCCTGCTCCGCCACTGCATGTACCAAGTTATCCCCGTCG
AGAACGGCCACCAGGCGTGGGCGTATCTTCAGGACATGCAGAGCAACATCGACCTTGTTC
TCACAGAGGTGTTCATGCACGGCGGCCTCTCCGGGATCGACCTGCTCGGCAGGATCATGA
ACCACGAGGTCTGCAAGGACATCCCCGTCATCATGATGTCGTCGCACGATTCCATGGGCA
CCGTCCTCAGCTGCCTCTCAAATGGTGCTGCTGACTTCTTGGCCAAGCCGATACGTAAGA
ACGAGCTTAAGAACCTTTGGGCGCATGTGTGGCGACGGTCTCACAGCTCCAGTGGCAGTG
GTAGTGGAAGTGCCATTCAGACTCAGAAGTGTACCAAATCAAAGAGCGGCGATGATTCCA
ATAACAACAGCAATGATCGCAACGACGATGCCAGCATGGGGCTCAATGCAAGGGATGGCA
GCGATAATGGCAGTGGCACTCAGGCGCAGAGCTCATGGACAAAGCGTGCCGTTGAGATCG
ACAGTCCCCAGGACATGTCTCCGGATCAGTCAGCCGATCCCCCTGAAGGCACTTGTGCCC
ATGTGAACCATCCCAAGTCAGAGATATGCAGCAATAGATGGTTACCAGGTACAAATAACA
AAAAATGCCAGAAACCAAAAGAAACCACTAATGGTGATGGATTCAAAGGCAAGGAGTTGG
AGATAGGAGCCCCTGGTAATTTGAACACAGACGATCAATCCTCCCCGAACGAGAGTTCGG
TCAAACCAACCGATGGACGGTGTGAGTATCTGCCACAGAACAATTCCAGTGATACGGTCA
TGGAGAATTTGGAGGAGCCAATTGTTCGAGCTGCTGACTTAATCGGTTCGATGGCCAAAA
ACATGGACGCCCAACAGGCAGCAGCTAGAGCCATAGATGCTCCTAACTGCTCCTTACAGG
CGTCGGAAGGGAAAGACACGGACGGCGAGAACGCTATGCCATATCTTGAGCTGAGCCTGA
AGAGGTCGAGATCGACCGGGGAAGGTGCAGGCCCGATCCAGGAGGAACAGAGGAACGTCG
TGAGACGGTCAGACCTGTCGGCATTCACGAGGTACAATATGTGTGCGGTCTCCAATCAAG
GCGGGGCAGGGTTCGTCGGGAGCTGCTCACCCAACGGCGACAGCTCCGAGGCCGCGAAAA
CGGTTGCTGCTCAGATGAAGCAGGGCTCTAACGGCAGCAGCAACAACAATGACATGGGCT
CCACCACGAAGAGCGTGGTGACCAAGCCCTGTGGAAATAATAAGGTTTCGCCCATCAACG
GCAACACACACACGTCGGCGTTTCATCGTGTGCAGCCATGGACGCCAGCGACAGCAGCAG
GAAAAGACAAGGCTGATGAAGTGAGCAAGAAGAACGTTGCAGCAGCAGCAGCAGCAGCGA
AAGAAATGGGTTGTGAAGCACAGAGCAAACACCCCTGTGCAGCGGCCGATGACGTGAATG
GTGGATCGGCAGGAGGCACTGCTCAGTCCAGTGTTGTCAATCCTTCGGGTCCGGTTGAAG
GCCATACTGCCAACTATGGTAGCAACTCATTCAGCAATAACAACACCAATAACGGGAGCA
CCGCAGCTACCACTGCTGCTGCTGCTGCTGTACATGCTGAGACCGGTGGTGGCGTCGACA
AAAGAAGTAACATGATGAACATGAAACGGGAGCGCCGTGTGGCCGCCGTGAACAAGTTCA
GAGAGAAGAGAAAAGAGAGGAACTTCGGGAAGAAGGTGCGTTACCAGAGCAGGAAGCGGC
TGGCCGAGCAGCGCCCACGGGTGCGCTGGCAGTTCGTGCGGCAGCCGCCGGCGCCGGCGA
CCGTGGAGAGATAACCTCCCGCCACGCACCTAGCTATACCTAGTACTCTACTAATTAGAC
AGCTGATTCTTGTGTCTTTGGCCATGGATCATTGGGAGCTCGTCTCATCTCCTGGAAGAA
GAAGAATAACGAGTGACTCCTCCTGCCTGCCTTAGCGACCTACCATAGAACATGCCGGCG
GAGGAGGACGAGGGCGATTGTACATAGTAGGAGCGTGTGGAGCCGATCAGACAGGCTCCC
GCTCTTGAATGTAGCAGCAATTGACCAATCAATGTCTGAGCCTCTAGAATGGTAGTATGA
GTGAGTATTGTGCTGTACACTTGTCATCAGCTTGGCCATGGCGGCAGCCTTGTCAGGTGT
CATCAATCAACGCATATTTGTGGTTTCTTTCTAGTTACCGGGCAGACATCATCATCGTAC
TTGTTGCAAATCTGTCTAACCTGTGTCGGCATCACGCGACATGTGGAAGTTTTGTTGCAC
ATTGTCTTTCATTTTAAAAGAAGAAGAAGAAGAAGAAGTAGAAGAAGAAGGTGAAGACCG
CTGAGACGAAACCGCATTTGTAGATTCTTTACTACTACTACGGTGAAGTGCTCCCTGCGT
TTCCTATCCAAGCGTTGTAGCATGCACTCGTCTTGCTTCAGCATCCTTGCGCGGCGGACT
CCAGCCTTTCGTCGACGAACAAGCACGAATCTTGGCTGGTGCTGGTGCTGGTGCAGAACA
CTTGAGAATGTACCGGGGGGACGAAGGAACCGGATCCTGTAGAGGACCACACGGGTAAAT
CCGTAACCGGTGGACGAG



Protein Sequence (673 aa)

>BART1_0-u07987.004 673 150831_barley_pseudomolecules
MRPRQPPPSAMDNQQQQQPPRGEHAAQPRCWEEFLHRKTIRVLLVETDDSTRQVVAALLR
HCMYQVIPVENGHQAWAYLQDMQSNIDLVLTEVFMHGGLSGIDLLGRIMNHEVCKDIPVI
MMSSHDSMGTVLSCLSNGAADFLAKPIRKNELKNLWAHVWRRSHSSSGSGSGSAIQTQKC
TKSKSGDDSNNNSNDRNDDASMGLNARDGSDNGSGTQAQSSWTKRAVEIDSPQDMSPDQS
ADPPEGTCAHVNHPKSEICSNRWLPGTNNKKCQKPKETTNGDGFKGKELEIGAPGNLNTD
DQSSPNESSVKPTDGRCEYLPQNNSSDTVMENLEEPIVRAADLIGSMAKNMDAQQAAARA
IDAPNCSLQASEGKDTDGENAMPYLELSLKRSRSTGEGAGPIQEEQRNVVRRSDLSAFTR
YNMCAVSNQGGAGFVGSCSPNGDSSEAAKTVAAQMKQGSNGSSNNNDMGSTTKSVVTKPC
GNNKVSPINGNTHTSAFHRVQPWTPATAAGKDKADEVSKKNVAAAAAAAKEMGCEAQSKH
PCAAADDVNGGSAGGTAQSSVVNPSGPVEGHTANYGSNSFSNNNTNNGSTAATTAAAAAV
HAETGGGVDKRSNMMNMKRERRVAAVNKFREKRKERNFGKKVRYQSRKRLAEQRPRVRWQ
FVRQPPAPATVER