Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20322.060

ChromosomeExonStartStopDirection
chr3H1230454148230453783+
chr3H2230454815230454273+
chr3H3230455710230455549+
chr3H4230456504230456035+
chr3H5230456754230456620+
chr3H6230457777230457669+
chr3H7230458200230458030+
chr3H8230459518230458788+


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
morexEPI0.000044186600
morexROO00.002676590
morexROO200.07523720
morexNOD000
morexRAC0.446640.08106450
morexINF100.1737050
morexINF200.1785140.000000608082
morexCAR50.34577500
morexCAR1500.2138790.0000133119
morexLEM00.00000001759140
morexLOD00.1809710
morexPAL000
morexSEN00.000123970



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 3e-67 239 121/168 (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 (2687 bp)

>BART1_0-u20322.060 2687 150831_barley_pseudomolecules
ACGTGAGATTGCGCGTCAAAAAACCCTATCGTCATCCTACCCCCCGCACATCGCTACCCT
ATGCCGCCGTCATCATCGCCGAGGGGATCCCCAGTCCCCGACCGCGGCCACCCGATCCCA
TGCCTGACCTTGGCGGCGCCGACACGTCCCCGATCGCGGTCGCCCCGCTCCCTCCAGATT
GCGGCAGGACCGCCTCGTCCCCGACCGCGGCCGCGTCACCCTGTCAAAGAACGGTGACGC
CTCACCCCGTCCCCGACCACGGCCGCCTCGCGTCGAGGAGAAGTAGGTGGTCGGCCTACG
GCGGCTCGAACCATCGCCATGGCGTCGTCCTCCTCCAAAGCCTCCTCCCACCGGGATGGC
CCCATGATCAGTGGCTCGACGTGGGCACCTCCGCGCTCATGGCGCTCCACGGGAAGCTGA
CGCAGATGAAGCGCCAAATCCAGCAGGCCCGCCTCACCTCCATGAGGATAAAGCATCGGC
ATCATCTACGGAATTCCTTGTGAATTGTGAGTTTCGGGTCACTCAATGTGATCCTCCTGT
TTTGAGCTTGTGTGCCTATGTTGTGTTTTGACAGGAGAAGCTGGAGGCAAACAGGAGGGC
GTTGCAGAAGCACACCGGCGGCCTGTTCGATGTGGCTGCCAAGGCGGAGGCGGCGTTGAG
GGGCTCGGAGAGCAGCAATGTGCTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGATCGT
TGGGTGGAACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAA
CCTGTCGGCCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCGT
TTTGTAGATTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGGATCTT
CCTGGACAAAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGAATTTA
CTATGATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCACA
ACCTGAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGGTTCAACTT
GATATTATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCTCGCCTCCGAGGA
AGAGAGATGATTGTCGTCCCTTGGTCGAGGATGGAGCTGACACGCTGTGACGCCACAGCT
ATTGAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGTCACCTAGGCTGG
TGTTTCTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATCAATGCACTCGAGGAGGCGG
CAGTGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTGCGATTTTCTACA
TGCGTTCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTCGGAACCACTAGATT
GTGACAGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCATCAACATGAACC
GGAGGGCCGTGAGGGACATCAAGAATATGATCAGCATGTTTATTTTCACATGACTGATGC
CCAGAGCTAGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATACTTA
TGGAACATATACGTTGTGCCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAGATGG
TTATACGTTTGAAACATCAACTGGCCTGTCAAGAATGTGAGAGGCCCTCGGGAGTGAAAA
AACTATCATTTGAGATAGTTGTTGGATTGAACAGCCGGAGCGTGGTGGCAAGGCAGCTAG
AGACAAAAAGGGAATTGGTGAAAGAGCAACTCGCACATCTATAGGTCTCTTGGAATCTCA
CATTTATCAATTTATGGAAAAGGGCATCCATTGGCATTCTAATAATTTTGTTAGAGAACG
GCATGGACTGAGGCAGCCGATGTGAACGAACACCGGGTACCCATAAACAAGAGGAAAAAA
CAACACATGTACAACGACAACAAGGTTAGCTAAGAAAAAATCAGGCTGCCGGTGTCTATT
AACCTAGGGCATGATCTTGGGACGTCCGGCTTCTTTCCAAAGTGAGATCTCATCCAACAT
CAGGTTGAAGACACTCAAAATGGTGGAACTTAAGTTGCGGACAATTCTGGTGTTTCGCTC
CTTCCACGTGAACCACCAGATAGCCTGCACTAAGTAGTTCCATCCCTTCTTCTTCGGGGC
AGCAAGACTGGCAGCGGAACTTTCCACTCAATCTGAGAGGCGGCTGGTGTCGCTGGAGGG
GCCTAAAGTAGCCGAGGTTGCAGGTAGCAGCATGAGCCGCCAAATAGCCTGAAAAATAGG
CATTGAGTGAGCAAAAGAATGTTGTCTTCATCCGTTGAGCGACTCATGTAGTACACCGGA
TCAGGGGAGCAGCCCCTTTTCTGCACATTGTCCCCGGTATATGTTGGCTTGGCCTTCTAC
TGCCCTTTAGTTATGTTACTGTCTAGAAATATTTGTAGTAGTTTTAAGATTTGAAAGCTC
ATTTTTATTAACTTGCTGTGTGTATGTGATTGTGAACTACTTCCATATTTTAGAAATATT
ATAAGGGAAAAGTTTTTGGTCAGCCGGCGGATCTGTCTGTGTGCACATCAATCGCCTTTC
TGACCATCGGATCTTTTATAATCAGACCACTTTAAAGCATCTTTTTT



Protein Sequence ( aa)

>BART1_0-u20322.060  150831_barley_pseudomolecules