Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20322.131

ChromosomeExonStartStopDirection
chr3H1230454148230453826+
chr3H2230454815230454278+
chr3H3230455710230455549+
chr3H4230456504230456035+
chr3H5230456754230456614+
chr3H6230457777230457660+
chr3H7230458200230458030+
chr3H8230459507230458788+


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
morexETI0.000009665980.000009650270
morexLEA0.0006488361.016620
morexEPI00.006119172.24896
morexROO000.00000703214
morexROO200.01509520.115005
morexNOD0.000001098770.000000264440
morexRAC0.0000004723090.00005581570.00000460559
morexINF10.000000069385100.0000000134132
morexINF200.000006691250
morexCAR50.00000007710510.002572390.00000000433996
morexCAR1500.0000000004070290
morexLEM0.000000004143930.000001744490.0000154271
morexLOD00.000002399840
morexPAL0.000001519970.001683610.0000000122806
morexSEN0.0000002681230.4254510



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g19480.1 +2 3e-59 214 109/169 (64%) protein|SET domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g64460.4.p +2 1e-66 238 121/168 (72%) 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 (2643 bp)

>BART1_0-u20322.131 2643 150831_barley_pseudomolecules
CCGCACATCGCTACCCTATGCCGCCGTCATCATCGCCGAGGGGATCCCCAGTCCCCGACC
GCGGCCACCCGATCCCATGCCTGACCTTGGCGGCGCCGACACGTCCCCGATCGCGGTCGC
CCCGCTCCCTCCAGATTGCGGCAGGACCGCCTCGTCCCCGACCGCGGCCGCGTCACCCTG
TCAAAGAACGGTGACGCCTCACCCCGTCCCCGACCACGGCCGCCTCGCGTCGAGGAGAAG
TAGGTGGTCGGCCTACGGCGGCTCGAACCATCGCCATGGCGTCGTCCTCCTCCAAAGCCT
CCTCCCACCGGGATGGCCCCATGTGGCTCGACGTGGGCACCTCCGCGCTCATGGCGCTCC
ACGGGAAGCTGACGCAGATGAAGCGCCAAATCCAGCAGGCCCGCCTCACCTCCATGAGGA
TAAAGCATCGGCATCATCTACGGAATTCCTTGTGAATTGTGAGTTTCGGGTCACTCAATG
TGATCCTCCTGTTTTGAGCTTGTGTGCCTATGTTGTGTTTTGACAGGAGAAGCTGGAGGC
AAACAGGAGGGCGTTGCAGAAGCACACCGGCGGCCTGTTCGATGTGGCTGCCAAGGCGGA
GGCGGCGTTGAGGGGCTCGGAGAGCAGCAATGTGCTGTCGCAGCTCGCCTCGGACGGCCA
GTCCAGGATCGTTGGGTGGAACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGT
GCAGGAGGAGAACCTGTCGGCCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGC
ACAAACCATCGTTTTGTAGATTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACAC
CACGTGGATCTTCCTGGACAAAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAG
GAGGAGAATTTACTATGATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGA
ACAAATTGCACAACCTGAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAAT
ATGGTTCAACTTGATATTATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCT
CGCCTCCGAGGAAGAGAGATGATTGTCGTCCCTTGGTCGAGGATGGAGCTGACACGCTGT
GACGCCACAGCTATTGAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGT
CACCTAGGCTGGTGTTTCTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATCAATGCAC
TCGAGGAGGCGGCAGTGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTG
CGATTTTCTACATGCGTTCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTCGG
AACCACTAGATTGTGACAGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCA
TCAACATGAACCGGAGGGCCGTGAGGGACATCAAGAATATGATCAGCATGTTTGTTCAGA
TTTTCACATGACTGATGCCCAGAGCTAGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGG
CAGAGCAAGGGATACTTATGGAACATATACGTTGTGCCAATGCATCGTTAGGCGAACATC
TTTCTATTTTGCAGCAAGTGCAGATGGTTATACGTTTGAAACATCAACTGGCCTGTCAAG
AATGTGAGAGGCCCTCGGGAGTGAAAAAACTATCATTTGAGATAGTTGTTGGATTGAACA
GCCGGAGCGTGGTGGCAAGGCAGCTAGAGACAAAAAGGGAATTGGTGAAAGAGCAACTCG
CACATCTATAGGTCTCTTGGAATCTCACATTTATCAATTTATGGAAAAGGGCATCCATTG
GCATTCTAATAATTTTGTTAGAGAACGGCATGGACTGAGGCAGCCGATGTGAACGAACAC
CGGGTACCCATAAACAAGAGGAAAAAACAACACATGTACAACGACAACAAGGTTAGCTAA
GAAAAAATCAGGCTGCCGGTGTCTATTAACCTAGGGCATGATCTTGGGACGTCCGGCTTC
TTTCCAAAGTGAGATCTCATCCAACATCAGGTTGAAGACACTCAAAATGGTGGAACTTAA
GTTGCGGACAATTCTGGTGTTTCGCTCCTTCCACGTGAACCACCAGATAGCCTGCACTAA
GTAGTTCCATCCCTTCTTCTTCGGGGCAGCAAGACTGGCAGCGGAACTTTCCACTCAATC
TGAGAGGCGGCTGGTGTCGCTGGAGGGGCCTAAAGTAGCCGAGGTTGCAGGTAGCAGCAT
GAGCCGCCAAATAGCCTGAAAAATAGGCATTGAGTGAGCAAAAGAATGTTGTCTTCATCC
GTTGAGCGACTCATGTAGTACACCGGATCAGGGGAGCAGCCCCTTTTCTGCACATTGTCC
CCGGTATATGTTGGCTTGGCCTTCTACTGCCCTTTAGTTATGTTACTGTCTAGAAATATT
TGTAGTAGTTTTAAGATTTGAAAGCTCATTTTTATTAACTTGCTGTGTGTATGTGATTGT
GAACTACTTCCATATTTTAGAAATATTATAAGGGAAAAGTTTTTGGTCAGCCGGCGGATC
TGTCTGTGTGCACATCAATCGCCTTTCTGACCATCGGATCTTTTATAATCAGACCACTTT
AAA



Protein Sequence ( aa)

>BART1_0-u20322.131  150831_barley_pseudomolecules