Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u07987.028

ChromosomeExonStartStopDirection
chr2H12912421729123736+
chr2H22912450529124325+
chr2H32912478129124617+
chr2H42912499229124859+
chr2H52912534429125189+
chr2H62912596929125780+
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
morexEMB000.739098
morexETI00.03765010
morexLEA01.952024.42304
morexEPI0.1749542.266833.925
morexROO000
morexROO2000
morexNOD0.85102100.0000963
morexRAC0.000000003308320.4597750.589102
morexINF10.01924150.07164510.00147062
morexINF22.263471.108441.4233
morexCAR50.71601300.00000318058
morexCAR15000
morexLEM0.00000000041474700.00000000356454
morexLOD000
morexPAL000
morexSEN2.391740.05491780.0247007



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g49460.2 +3 0.0 657 424/685 (62%) protein|response regulator receiver domain containing protein, expressed
TAIR PP10 AT5G02810 @ ARAPORT
AT5G02810.1 @ TAIR		 +3 9e-72 253 191/456 (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 (3159 bp)

>BART1_0-u07987.028 3159 150831_barley_pseudomolecules
CCTCCCTCGCCTCCCACACCCACCCACACACACAGCACACCCTCCTCGGCTCGACTCGAC
TCGCCGCCGCCGCCGCAGTCCATGGCCTCGTCGTCCTCCTCCTGACCGGCAGCAGACCCA
AGGTGCGCTCCCGCCCGTCTATGGTCACCCACGCGCTCTGTTTCCGCTCGATTGGGGGAT
CGAATCACCCGTTTCAATCTCAATCTACGTGCGTGTGGATCCAGGGCACGCTCAGGCTCT
CTCTAGCTGCTGCTAATAGTATGTGTCCGGAAATTGCTGGAGATTAACCGGCTCGCACGC
CTTGTCTGCTACTGCCCCCCCTTATAGCCGCCGGCAGCTCCATTCCAGGAGACGATTCAT
TCCGCTGCAGTCTCAACCCCCTTGCTCTTGTGTGTTTTTTTTGCGTTTTGTTTTTATTGG
TTTGGTCCGCTGCTCCGCCGCCGTCGACGACGAACGCCGTGGGACTCCCGGATGCGACCG
AGCCTCCTCCTAGCGCCATGGACAATCAGCAGCAGCAGCAGCCGCCGCGCGGGGAGCACG
CCGCCCAGCCGCGATGCTGGGAGGAGTTCCTACACAGGAAGACCATCCGGGTCCTGCTCG
TGGAGACCGACGACTCCACCAGGCAGGTCGTCGCCGCCCTGCTCCGCCACTGCATGTACC
AAGTTATCCCCGTCGAGAACGGCCACCAGGCGTGGGCGTATCTTCAGGACATGCAGAGCA
ACATCGACCTTGTTCTCACAGAGGTGTTCATGCACGGCGGCCTCTCCGGGATCGACCTGC
TCGGCAGGATCATGAACCACGAGGTCTGCAAGGACATCCCCGTCATCATGATGTCGTCGC
ACGATTCCATGGGCACCGTCCTCAGCTGCCTCTCAAATGGTGCTGCTGACTTCTTGGCCA
AGCCGATACGTAAGAACGAGCTTAAGAACCTTTGGGCGCATGTGTGGCGACGGTCTCACA
GCTCCAGTGGCAGTGGTAGTGGAAGTGCCATTCAGACTCAGAAGTGTACCAAATCAAAGA
GCGGCGATGATTCCAATAACAACAGCAATGATCGCAACGACGATGCCAGCATGGGGCTCA
ATGCAAGGGATGGCAGCGATAATGGCAGTGGCACTCAGGCGCAGAGCTCATGGACAAAGC
GTGCCGTTGAGATCGACAGTCCCCAGGACATGTCTCCGGATCAGTCAGCCGATCCCCCTG
AAGGCACTTGTGCCCATGTGAACCATCCCAAGTCAGAGATATGCAGCAATAGATGGTTAC
CAGGTACAAATAACAAAAAATGCCAGAAACCAAAAGAAACCACTAATGGTGATGGATTCA
AAGGCAAGGAGTTGGAGATAGGAGCCCCTGGTAATTTGAACACAGACGATCAATCCTCCC
CGAACGAGAGTTCGGTCAAACCAACCGATGGACGGTGTGAGTATCTGCCACAGAACAATT
CCAGTGATACGGTCATGGAGAATTTGGAGGAGCCAATTGTTCGAGCTGCTGACTTAATCG
GTTCGATGGCCAAAAACATGGACGCCCAACAGGCAGCAGCTAGAGCCATAGATGCTCCTA
ACTGCTCCTTACAGGCGTCGGAAGGGAAAGACACGGACGGCGAGAACGCTATGCCATATC
TTGAGCTGAGCCTGAAGAGGTCGAGATCGACCGGGGAAGGTGCAGGCCCGATCCAGGAGG
AACAGAGGAACGTCGTGAGACGGTCAGACCTGTCGGCATTCACGAGGTACAATATGTGTG
CGGTCTCCAATCAAGGCGGGGCAGGGTTCGTCGGGAGCTGCTCACCCAACGGCGACAGCT
CCGAGGCCGCGAAAACGGTTGCTGCTCAGATGAAGCAGGGCTCTAACGGCAGCAGCAACA
ACAATGACATGGGCTCCACCACGAAGAGCGTGGTGACCAAGCCCTGTGGAAATAATAAGG
TTTCGCCCATCAACGGCAACACACACACGTCGGCGTTTCATCGTGTGCAGCCATGGACGC
CAGCGACAGCAGCAGGAAAAGACAAGGCTGATGAAGTGAGCAAGAAGAACGTTGCAGCAG
CAGCAGCAGCAGCGAAAGAAATGGGTTGTGAAGCACAGAGCAAACACCCCTGTGCAGCGG
CCGATGACGTGAATGGTGGATCGGCAGGAGGCACTGCTCAGTCCAGTGTTGTCAATCCTT
CGGGTCCGGTTGAAGGCCATACTGCCAACTATGGTAGCAACTCATTCAGCAATAACAACA
CCAATAACGGGAGCACCGCAGCTACCACTGCTGCTGCTGCTGCTGTACATGCTGAGACCG
GTGGTGGCGTCGACAAAAGAAGTAACATGATGAACATGAAACGGGAGCGCCGTGTGGCCG
CCGTGAACAAGTTCAGAGAGAAGAGAAAAGAGAGGAACTTCGGGAAGAAGGTGCGTTACC
AGAGCAGGAAGCGGCTGGCCGAGCAGCGCCCACGGGTGCGCTGGCAGTTCGTGCGGCAGC
CGCCGGCGCCGGCGACCGTGGAGAGATAACCTCCCGCCACGCACCTAGCTATACCTAGTA
CTCTACTAATTAGACAGCTGATTCTTGTGTCTTTGGCCATGGATCATTGGGAGCTCGTCT
CATCTCCTGGAAGAAGAAGAATAACGAGTGACTCCTCCTGCCTGCCTTAGCGACCTACCA
TAGAACATGCCGGCGGAGGAGGACGAGGGCGATTGTACATAGTAGGAGCGTGTGGAGCCG
ATCAGACAGGCTCCCGCTCTTGAATGTAGCAGCAATTGACCAATCAATGTCTGAGCCTCT
AGAATGGTAGTATGAGTGAGTATTGTGCTGTACACTTGTCATCAGCTTGGCCATGGCGGC
AGCCTTGTCAGGTGTCATCAATCAACGCATATTTGTGGTTTCTTTCTAGTTACCGGGCAG
ACATCATCATCGTACTTGTTGCAAATCTGTCTAACCTGTGTCGGCATCACGCGACATGTG
GAAGTTTTGTTGCACATTGTCTTTCATTTTAAAAGAAGAAGAAGAAGAAGAAGTAGAAGA
AGAAGGTGAAGACCGCTGAGACGAAACCGCATTTGTAGATTCTTTACTACTACTACGGTG
AAGTGCTCCCTGCGTTTCCTATCCAAGCGTTGTAGCATGCACTCGTCTTGCTTCAGCATC
CTTGCGCGGCGGACTCCAGCCTTTCGTCGACGAACAAGC



Protein Sequence (663 aa)

>BART1_0-u07987.028 663 150831_barley_pseudomolecules
MDNQQQQQPPRGEHAAQPRCWEEFLHRKTIRVLLVETDDSTRQVVAALLRHCMYQVIPVE
NGHQAWAYLQDMQSNIDLVLTEVFMHGGLSGIDLLGRIMNHEVCKDIPVIMMSSHDSMGT
VLSCLSNGAADFLAKPIRKNELKNLWAHVWRRSHSSSGSGSGSAIQTQKCTKSKSGDDSN
NNSNDRNDDASMGLNARDGSDNGSGTQAQSSWTKRAVEIDSPQDMSPDQSADPPEGTCAH
VNHPKSEICSNRWLPGTNNKKCQKPKETTNGDGFKGKELEIGAPGNLNTDDQSSPNESSV
KPTDGRCEYLPQNNSSDTVMENLEEPIVRAADLIGSMAKNMDAQQAAARAIDAPNCSLQA
SEGKDTDGENAMPYLELSLKRSRSTGEGAGPIQEEQRNVVRRSDLSAFTRYNMCAVSNQG
GAGFVGSCSPNGDSSEAAKTVAAQMKQGSNGSSNNNDMGSTTKSVVTKPCGNNKVSPING
NTHTSAFHRVQPWTPATAAGKDKADEVSKKNVAAAAAAAKEMGCEAQSKHPCAAADDVNG
GSAGGTAQSSVVNPSGPVEGHTANYGSNSFSNNNTNNGSTAATTAAAAAVHAETGGGVDK
RSNMMNMKRERRVAAVNKFREKRKERNFGKKVRYQSRKRLAEQRPRVRWQFVRQPPAPAT
VER