Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u07987.006

ChromosomeExonStartStopDirection
chr2H12912385729123713+
chr2H22912421729123960+
chr2H32912450529124321+
chr2H42912478129124617+
chr2H52912499229124859+
chr2H62912534429125189+
chr2H72912597429125780+
chr2H82912648429126067+
chr2H92912723029126567+
chr2H102912841929127330+


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
morexLEA000
morexEPI000
morexROO000
morexROO2000
morexNOD000
morexRAC000
morexINF1000
morexINF2000
morexCAR5000
morexCAR15000
morexLEM000
morexLOD000.00000115051
morexPAL000
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g49460.2 +3 0.0 348 191/255 (75%) protein|response regulator receiver domain containing protein, expressed
TAIR PP10 AT5G02810 @ ARAPORT
AT5G02810.1 @ TAIR		 +3 3e-59 218 136/271 (50%) Symbols: PRR7, APRR7 | pseudo-response regulator 7 | chr5:638283-641461 REVERSE LENGTH=727
BRACH PP3 Bradi1g16490.4.p +2 8e-129 404 279/406 (69%) pacid=32803661 transcript=Bradi1g16490.4 locus=Bradi1g16490 ID=Bradi1g16490.4.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 (3410 bp)

>BART1_0-u07987.006 3410 150831_barley_pseudomolecules
CCCGATATCTACTCCTCCGCCCCCCTCCCTCGCCTCCCACACCCACCCACACACACAGCA
CACCCTCCTCGGCTCGACTCGACTCGCCGCCGCCGCCGCAGTCCATGGCCTCGTCGTCCT
CCTCCTGACCGGCAGCAGACCCAAGGGCACGCTCAGGCTCTCTCTAGCTGCTGCTAATAG
TATGTGTCCGGAAATTGCTGGAGATTAACCGGCTCGCACGCCTTGTCTGCTACTGCCCCC
CCTTATAGCCGCCGGCAGCTCCATTCCAGGAGACGATTCATTCCGCTGCAGTCTCAACCC
CCTTGCTCTTGTGTGTTTTTTTTGCGTTTTGTTTTTATTGGTTTGGTCCGCTGCTCCGCC
GCCGTCGACGACGAACGCCGTGGGACTCCCGGATGCGACCGAGGCAGCCTCCTCCTAGCG
CCATGGACAATCAGCAGCAGCAGCAGCCGCCGCGCGGGGAGCACGCCGCCCAGCCGCGAT
GCTGGGAGGAGTTCCTACACAGGAAGACCATCCGGGTCCTGCTCGTGGAGACCGACGACT
CCACCAGGCAGGTCGTCGCCGCCCTGCTCCGCCACTGCATGTACCAAGTTATCCCCGTCG
AGAACGGCCACCAGGCGTGGGCGTATCTTCAGGACATGCAGAGCAACATCGACCTTGTTC
TCACAGAGGTGTTCATGCACGGCGGCCTCTCCGGGATCGACCTGCTCGGCAGGATCATGA
ACCACGAGGTCTGCAAGGACATCCCCGTCATCATGATGTCGTCGCACGATTCCATGGGCA
CCGTCCTCAGCTGCCTCTCAAATGGTGCTGCTGACTTCTTGGCCAAGCCGATACGTAAGA
ACGAGCTTAAGAACCTTTGGGCGCATGTGTGGCGACGGTCTCACAGCTCCAGTGGCAGTG
GTAGTGGAAGTGCCATTCAGACTCAGAAGTGTACCAAATCAAAGAGCGGCGATGATTCCA
ATAACAACAGCAATGATCGCAACGACGATGCCAGCATGGGGCTCAATGCAAGGGATGGCA
GCGATAATGGCAGTGGCACTCAGGCGCAGAGCTCATGGACAAAGCGTGCCGTTGAGATCG
ACAGTCCCCAGGACATGTCTCCGGATCAGTCAGCCGATCCCCCTGAAGGCACTTGTGCCC
ATGTGAACCATCCCAAGTCAGAGATATGCAGCAATAGATGGTTACCAGGTACAAATAACA
AAAAATGCCAGAAACCAAAAGAAACCACTAATGGTATGGTGATGGATTCAAAGGCAAGGA
GTTGGAGATAGGAGCCCCTGGTAATTTGAACACAGACGATCAATCCTCCCCGAACGAGAG
TTCGGTCAAACCAACCGATGGACGGTGTGAGTATCTGCCACAGAACAATTCCAGTGATAC
GGTCATGGAGAATTTGGAGGAGCCAATTGTTCGAGCTGCTGACTTAATCGGTTCGATGGC
CAAAAACATGGACGCCCAACAGGCAGCAGCTAGAGCCATAGATGCTCCTAACTGCTCCTT
ACAGGCGTCGGAAGGGAAAGACACGGACGGCGAGAACGCTATGCCATATCTTGAGCTGAG
CCTGAAGAGGTCGAGATCGACCGGGGAAGGTGCAGGCCCGATCCAGGAGGAACAGAGGAA
CGTCGTGAGACGGTCAGACCTGTCGGCATTCACGAGGTACAATATGTGTGCGGTCTCCAA
TCAAGGCGGGGCAGGGTTCGTCGGGAGCTGCTCACCCAACGGCGACAGCTCCGAGGCCGC
GAAAACGGTTGCTGCTCAGATGAAGCAGGGCTCTAACGGCAGCAGCAACAACAATGACAT
GGGCTCCACCACGAAGAGCGTGGTGACCAAGCCCTGTGGAAATAATAAGGTTTCGCCCAT
CAACGGCAACACACACACGTCGGCGTTTCATCGTGTGCAGCCATGGACGCCAGCGACAGC
AGCAGGAAAAGACAAGGCTGATGAAGTGAGCAAGAAGAACGTTGCAGCAGCAGCAGCAGC
AGCGAAAGAAATGGGTTGTGAAGCACAGAGCAAACACCCCTGTGCAGCGGCCGATGACGT
GAATGGTGGATCGGCAGGAGGCACTGCTCAGTCCAGTGTTGTCAATCCTTCGGGTCCGGT
TGAAGGCCATACTGCCAACTATGGTAGCAACTCATTCAGCAATAACAACACCAATAACGG
GAGCACCGCAGCTACCACTGCTGCTGCTGCTGCTGTACATGCTGAGACCGGTGGTGGCGT
CGACAAAAGAAGTAACATGATGAACATGAAACGGGAGCGCCGTGTGGCCGCCGTGAACAA
GTTCAGAGAGAAGAGAAAAGAGAGGAACTTCGGGAAGAAGGTGCGTTACCAGAGCAGGAA
GCGGCTGGCCGAGCAGCGCCCACGGGTGCGCTGGCAGTTCGTGCGGCAGCCGCCGGCGCC
GGCGACCGTGGAGAGATAACCTCCCGCCACGCACCTAGCTATACCTAGTACTCTACTAAT
TAGACAGCTGATTCTTGTGTCTTTGGCCATGGATCATTGGGAGCTCGTCTCATCTCCTGG
AAGAAGAAGAATAACGAGTGACTCCTCCTGCCTGCCTTAGCGACCTACCATAGAACATGC
CGGCGGAGGAGGACGAGGGCGATTGTACATAGTAGGAGCGTGTGGAGCCGATCAGACAGG
CTCCCGCTCTTGAATGTAGCAGCAATTGACCAATCAATGTCTGAGCCTCTAGAATGGTAG
TATGAGTGAGTATTGTGCTGTACACTTGTCATCAGCTTGGCCATGGCGGCAGCCTTGTCA
GGTGTCATCAATCAACGCATATTTGTGGTTTCTTTCTAGTTACCGGGCAGACATCATCAT
CGTACTTGTTGCAAATCTGTCTAACCTGTGTCGGCATCACGCGACATGTGGAAGTTTTGT
TGCACATTGTCTTTCATTTTAAAAGAAGAAGAAGAAGAAGAAGTAGAAGAAGAAGGTGAA
GACCGCTGAGACGAAACCGCATTTGTAGATTCTTTACTACTACTACGGTGAAGTGCTCCC
TGCGTTTCCTATCCAAGCGTTGTAGCATGCACTCGTCTTGCTTCAGCATCCTTGCGCGGC
GGACTCCAGCCTTTCGTCGACGAACAAGCACGAATCTTGGCTGGTGCTGGTGCTGGTGCA
GAACACTTGAGAATGTACCGGGGGGACGAAGGAACCGGATCCTGTAGAGGACCACACGGG
TAAATCCGTAACCGGTGGACGAGGCGAGTTGCTCCACGATGTTTTAGGTGGTGTTTCTTT
TCAAGGGACTAGATTTTTTTTTTAGTCTTAGGGATTAAAGAAAAAAGTCCTTTCAATAGA
ATCTTTTTCTAGTCTTTTAAGGAAAAGCCCCTCCTGTTTTTTACTTAGGGACTAAAAGTG
ACTTTTTAGTCTAGTCCCTGGGTAAAGAAACACCACCTTAACAAGTTGAG



Protein Sequence (344 aa)

>BART1_0-u07987.006 344 150831_barley_pseudomolecules
MENLEEPIVRAADLIGSMAKNMDAQQAAARAIDAPNCSLQASEGKDTDGENAMPYLELSL
KRSRSTGEGAGPIQEEQRNVVRRSDLSAFTRYNMCAVSNQGGAGFVGSCSPNGDSSEAAK
TVAAQMKQGSNGSSNNNDMGSTTKSVVTKPCGNNKVSPINGNTHTSAFHRVQPWTPATAA
GKDKADEVSKKNVAAAAAAAKEMGCEAQSKHPCAAADDVNGGSAGGTAQSSVVNPSGPVE
GHTANYGSNSFSNNNTNNGSTAATTAAAAAVHAETGGGVDKRSNMMNMKRERRVAAVNKF
REKRKERNFGKKVRYQSRKRLAEQRPRVRWQFVRQPPAPATVER