Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u05042.010

ChromosomeExonStartStopDirection
chr1H1501617385501616699-
chr1H2501618616501617967-
chr1H3501619133501618955-
chr1H4501619580501619330-


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
morexEMB0.5581561.58210.745606
morexETI2.115131.287210.986433
morexLEA3.096450.3022030.977873
morexEPI2.963891.437162.41654
morexROO00.3177160.391824
morexROO200.1471280.156394
morexNOD0.9063530.4909150.469503
morexRAC0.6021580.5664821.3346
morexINF10.1713551.235140.619599
morexINF21.100811.510881.37738
morexCAR51.396670.6029741.26017
morexCAR15000.232416
morexLEM000.191203
morexLOD0.5092350.6028490.624517
morexPAL0.6775350.5537620.67485
morexSEN1.327492.754851.72268



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g06280.3 +3 8e-46 160 77/84 (92%) protein|LSD1 zinc finger domain containing protein, expressed
TAIR PP10 AT1G32540 @ ARAPORT
AT1G32540.1 @ TAIR		 +3 5e-42 149 73/81 (90%) Symbols: LOL1 | lsd one like 1 | chr1:11768253-11769591 FORWARD LENGTH=187
BRACH PP3 Bradi3g16400.2.p +3 2e-50 174 94/152 (62%) pacid=32812783 transcript=Bradi3g16400.2 locus=Bradi3g16400 ID=Bradi3g16400.2.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 (1767 bp)

>BART1_0-u05042.010 1767 150831_barley_pseudomolecules
CTTATCTGCCGCATTCCAACTCATGTTGTTATTCTGAGCAAAACTCGACTCGCTCGCTCG
TCTCGACATCTGCACCGGATCGAGCTCAGCAAAGCCCGAGCCGGAGGCGCTCGTCTGCCC
GGGGAGCGGCGCCATGCGGGTCCGCCTCTTCCTCTGAACCGGGCAAGCGCGAGCCGCCTT
CTTCCTCCGGCTCGGCGTCGGCGGCGACGACGAGCGTCGGTGGCGGCATAGCACGGTCCA
GCGACGAGCAGGATTTCATGTAGAGGAGGGCAATCTGTTCTCATCCCCTCGACTTCCAGC
AGAGCGTGCGAAGTCTCGTCCGCAGCAACGACGACGCCGGCTCAGGCAGCCGCGGGCACG
GCAATGCCGGTTCCTCTTGCCCCTTACCCAACTCCTCCTGCGCCCTTCACGCCACCCGCT
CCCAATGCAGGTGAGCTTCAGCCACTGAAATTTCATAACTAAGGTTCCATGCTTGAGCAA
TTTCAGGGGCTCAAAGCCAACTTGTCTGCTCTGGGTGCCGGAATCTGCTCATGTATCCTG
CCGGCGCAACGTCGGTATGCTGCGCGGTTTGCAGTACCGTGACCGCTGTTCCGGCTCCTG
GTATGCACATCAATCTCATTTTGCCCATCAAGGATTTGTATGCAATGTGGCAGCCACTGA
ACATTGAGTTCCATATCTGCATGATTAGTATGGGAGACAGCAGTGTGCATTCTAATCGAC
TCTGACAAGTAACATCCTTTGTTATTTTTAATGAAAAGAAACGCAACATCTCGTTTATCT
GTGCACTTAACTTCTGAAGTTTACCAAGAAAGGACGATTTTGCATGCATATTTCACCACA
CTTGCAGATCAAGGGGGTTAAAAATGTAACCCCTTAAACCAATCCAATCCAAAACGCTTT
GCATTAGCTGGAAACTATCCTGAAGTGCGGTTCTCTGAATGTATTTTCCACCCTGATTCG
GTGCAGGGACCGAGATGGCGCAGCTAGTTTGCGGAGGATGCCACACTCTTCTGATGTACA
TACGTGGTGCCACAAGTGTACAGTGTTCTTGCTGCCACACTGTCAACCTGGCAATGGAAG
CGAATCAGGTTGCGCATGTAAACTGTGGGAGTTGCCGAATGCTGCTCATGTACCAGTACG
GCGCAAGGTCCGTCAAATGTGCAGTCTGCAGTTTCGTGACATCAGTTGGGGTAAGTATTC
ATTATCAGAGCTGTTAATCCTAGCACATGAAAAACATTTGCTGTTTTCTGGATTTTTCAC
ATCACCTAATTGTCATTGTTGTTGAGCGACCTGAATTTCATACCAACCATAACTGAAATG
CGTTACTTTTTGCCATTTTCAGGCATCATCGGGTGCAGAGCAGAAGCCCAGCAACTGAAA
TCCTGCAAGTTCATTACGAAGGCAGCTTCCCGAAATAAGAATGCTTTGAGTGCACATGTA
TAGAGTTCTTCCCAGAAGCAACCTTTTCCTCCCCTCTCCATTTCTCCCTTCGTTGGACCT
GGCGAGCTTGCGGAATAAACAAGAGTTTTTGGTAATACATAGTTGCTCAAAATTCGTCGA
ATCATCTGTGTAACTGGGTCAGACAGATACATGAACCCACCATGTTTATGTTCAAATTTA
GCTTCTTTTACTTGTGTTCTATATATTTCAGATTTTTTTTCTTGTGGTCATCGGAAGAAT
TTCTTCAGATGTGCTTTGCCGTGCGTATTCTTGAACCGATCTATATCACTGCAGACATGA
TCATGAACATGAACAGTTTACAAACAC



Protein Sequence ( aa)

>BART1_0-u05042.010  150831_barley_pseudomolecules