Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20322.137

ChromosomeExonStartStopDirection
chr3H1230454148230453834+
chr3H2230454412230454273+
chr3H3230454815230454481+
chr3H4230456500230455544+
chr3H5230456754230456620+
chr3H6230458200230457669+
chr3H7230459496230458788+


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
morexETI0.4135650.00001155130
morexLEA0.1516640.06025830
morexEPI0.080470800
morexROO00.1527720.148942
morexROO20.25130900
morexNOD0.084196800
morexRAC0.2710760.3189740.520119
morexINF1000.0154309
morexINF200.09312560.437639
morexCAR500.3572170.0000971089
morexCAR150.003638360.1368850
morexLEM0.325030.09664130.633887
morexLOD0.0000001521040.3958860.0000074067
morexPAL00.2551470.203914
morexSEN0.26869400.16298



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g19480.1 +3 2e-54 144 83/152 (55%) protein|SET domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g64460.4.p +3 2e-62 165 92/156 (59%) pacid=32796250 transcript=Bradi1g64460.4 locus=Bradi1g64460 ID=Bradi1g64460.4.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 (3123 bp)

>BART1_0-u20322.137 3123 150831_barley_pseudomolecules
CGCTACCCTATGCCGCCGTCATCATCGCCGAGGGGATCCCCAGTCCCCGACCGCGGCCAC
CCGATCCCATGCCTGACCTTGGCGGCGCCGACACGTCCCCGATCGCGGTCGCCCCGCTCC
CTCCAGATTGCGGCAGGACCGCCTCGTCCCCGACCGCGGCCGCGTCACCCTGTCAAAGAA
CGGTGACGCCTCACCCCGTCCCCGACCACGGCCGCCTCGCGTCGAGGAGAAGTAGGTGGT
CGGCCTACGGCGGCTCGAACCATCGCCATGGCGTCGTCCTCCTCCAAAGCCTCCTCCCAC
CGGGATGGCCCCATGATCAGTGGCTCGACGTGGGCACCTCCGCGCTCATGGCGCTCCACG
GGAAGCTGACGCAGATGAAGCGCCAAATCCAGCAGGCCCGCCTCACCTCCATGAGGATAA
AGCATCGGCATCATCTACGGAATTCCTTGTGAATTGAGAAGCTGGAGGCAAACAGGAGGG
CGTTGCAGAAGCACACCGGCGGCCTGTTCGATGTGGCTGCCAAGGCGGAGGCGGCGTTGA
GGGGCTCGGAGAGCAGCAATGTGCTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGATCG
TTGGGTGGAACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGA
ACCTGTCGGCCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCG
TTTTGTAGATTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGGATCT
TCCTGGACAATGCAGAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAG
AATTTACTATGATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAAT
TGCACAACCTGAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGGTA
ATAATAGAATATATATTGGCCAATTGAGATGCTTTTTAATGCATATTGATGTTGAACTTG
AAAATGCTTGTTGGCTAGCACATATTCTAGAAGGACTTAGTAGTAGACTATTCTTTAATA
CTATGTTTCATCGCCAATTTTGCATGTTCGATGTGGCACACGTGCGGCATGTTCGATGTG
GCCGCCAAGGCGGAGGTGGCGTTGGTATGCATATCAAACAAGATCTATATGCATTATCTT
GAACCTGCAAATGATTCTAGACCAGCAATACAAGTATATGTTCACATATTGATGAAACTG
AAAATGCTTCTGCTATTTCAGGTTCAACTTGATATTATGCCAGGCGAGAGACACATAGAG
TTAGGGAACGGCCGAGCTCGCCTCCGAGGAAGAGAGATGATTGTCGTCCCTTGGTCGAGG
ATGGAGCTGACACGCTGTGACGCCACAGCTATTGAGGCTATCCGTCAAGTGTGGCCGGAT
TTGGGCATCTGGTGTTGTCACCTAGGCTGGTGTTTCTCCTCTATGCACGCTTGCTTTATC
GTTGCCGGATCAATGCACTCGAGGAGGCGGCAGTGGATCCCTAGGTTTTTCGGTTTTTGA
AAGAGAATTTTGTTTTTGCGATTTTCTACATGCGTTCCATCAGCAATTGAGAATCATGTG
CAAGCCGTGAGATTTCGGAACCACTAGATTGTGACAGTGCAGGAAGTAAAATATGCGTCG
GAGACGGCTATGAAGGCATCAACATGAACCGGAGGGCCGTGAGGGACATCAAGAATATGA
TCAGCATATTTTCACATGACTGATGCCCAGAGCTAGCAGGTCTCAGGACTGAGCTCGTGC
CCATGCGGCAGAGCAAGGGATACTTATGGAACATATACGTTGTGCCAATGCATCGTTAGG
CGAACATCTTTCTATTTTGCAGATGGTTATACGTTTGAAACATCAACTGGCCTGTCAAGA
ATGTGAGAGGCCCTCGGGAGTGAAAAAACTATCATTTGAGATAGTTGTTGGATTGAACAG
CCGGAGCGTGGGTATGCTTCAGATTTGTACTATTCTTTATTAATACCTTCTCTTTCTTTA
CGAAAATTCACAAATTAGTGATGTGTATTGTGCTTATTTTATTACTTTATTTTTATCCTG
TAGGTAAATGCTTCTTTGCGAAGTACAGTTATACAATATGAATCTTTTAGTCACAATCAG
TATTATGCCTTGTACACATTTTTGTTGCGTTGTTGTAGGCTTGTAGCTGAATTTTCTGAT
GATAGACTGAACTCTATATGCAGTGGCAAGGCAGCTAGAGACAAAAAGGGAATTGGTGAA
AGAGCAACTCGCACATCTATAGGTCTCTTGGAATCTCACATTTATCAATTTATGGAAAAG
GGCATCCATTGGCATTCTAATAATTTTGTTAGAGAACGGCATGGACTGAGGCAGCCGATG
TGAACGAACACCGGGTACCCATAAACAAGAGGAAAAAACAACACATGTACAACGACAACA
AGGTTAGCTAAGAAAAAATCAGGCTGCCGGTGTCTATTAACCTAGGGCATGATCTTGGGA
CGTCCGGCTTCTTTCCAAAGTGAGATCTCATCCAACATCAGGTTGAAGACACTCAAAATG
GTGGAACTTAAGTTGCGGACAATTCTGGTGTTTCGCTCCTTCCACGTGAACCACCAGATA
GCCTGCACTAAGTAGTTCCATCCCTTCTTCTTCGGGGCAGCAAGACTGGCAGCGGAACTT
TCCACTCAATCTGAGAGGCGGCTGGTGTCGCTGGAGGGGCCTAAAGTAGCCGAGGTTGCA
GGTAGCAGCATGAGCCGCCAAATAGCCTGAAAAATAGGCATTGAGTGAGCAAAAGAATGT
TGTCTTCATCCGTTGAGCGACTCATGTAGTACACCGGATCAGGGGAGCAGCCCCTTTTCT
GCACATTGTCCCCGGTATATGTTGGCTTGGCCTTCTACTGCCCTTTAGTTATGTTACTGT
CTAGAAATATTTGTAGTAGTTTTAAGATTTGAAAGCTCATTTTTATTAACTTGCTGTGTG
TATGTGATTGTGAACTACTTCCATATTTTAGAAATATTATAAGGGAAAAGTTTTTGGTCA
GCCGGCGGATCTGTCTGTGTGCACATCAATCGCCTTTCTGACCATCGGATCTTTTATAAT
CAG



Protein Sequence (127 aa)

>BART1_0-u20322.137 127 150831_barley_pseudomolecules
MPDLGGADTSPIAVAPLPPDCGRTASSPTAAASPCQRTVTPHPVPDHGRLASRRSRWSAY
GGSNHRHGVVLLQSLLPPGWPHDQWLDVGTSALMALHGKLTQMKRQIQQARLTSMRIKHR
HHLRNSL