Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u35721.005

ChromosomeExonStartStopDirection
chr5H1405760204405760055+
chr5H2405760512405760429+
chr5H3405761523405761364+
chr5H4405762633405762486+
chr5H5405762807405762709+
chr5H6405763442405763358+
chr5H7405764026405763535+


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
morexEMB153.003143.75163.717
morexETI11.939914.945916.5719
morexLEA68.440332.85836.7194
morexEPI6.0264619.28058.4745
morexROO88.709278.216753.3063
morexROO264.220460.428751.0122
morexNOD316.89467.786634.5547
morexRAC51.09354.510858.8257
morexINF166.106373.546664.9986
morexINF227.474540.132538.1806
morexCAR576.406186.318791.295
morexCAR157.530129.094410.1973
morexLEM23.401120.254324.1986
morexLOD65.59954.066368.5377
morexPAL53.837647.96754.6944
morexSEN12.967217.953225.2175



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g21250.2 +1 3e-97 289 171/190 (90%) protein|clathrin adaptor complex small chain domain containing protein, expressed
TAIR PP10 AT3G09800 @ ARAPORT
AT3G09800.1 @ TAIR		 +1 9e-71 220 128/185 (69%) Symbols: | SNARE-like superfamily protein | chr3:3006731-3007916 REVERSE LENGTH=179
BRACH PP3 Bradi4g08770.4.p +1 5e-102 300 178/190 (94%) pacid=32783612 transcript=Bradi4g08770.4 locus=Bradi4g08770 ID=Bradi4g08770.4.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 (1218 bp)

>BART1_0-u35721.005 1218 150831_barley_pseudomolecules
GTTGGAGTAGCTAAACTAACCAGCTCGTCCATTTCCGCTCGCCTAATCCCTCCCGTCTTT
CTCTACACTCGTCTGCTGCATCTCAGATCTCGCGGGCACCAACAAACCAAAGCAAAGCTC
TCCCGCTGTCCCGATCACTCTCCCTTCCAGGTGCGTTTCTTTCTTCGGCAGGAAGCTTGG
ACCGGAGGAAGGTGCTGAGAGGGCGGAAAGGAGGCCATGGGGGAATTCTCCAAGGAATCT
TGCCCGTCTGTGAAGAACATTTTGCTACTGGATTCTGAGGGAAAGCGCGTTGCTGTGAAG
TACTTCTCGGATGATTGGCCGAACAACGCATCTAGGTTGACCTTTGAAAAGTCCATTTTT
ACTAAAACTCTGAAGACAAATGCACGCTCAGAAGCTGAGATAACATTGCTTGATGGTAAT
ATTGTTGTTTACAAGTTTGTACAAGACCTTCACTTCTTCGTCACTGCCGGAGATGATGAG
AATGAGCTAATCATAGCAAATGTGCTACAGGGTTTTGCTGATTCGGTTGGTCTTCTACTC
AGGTGCAACTTATTGTGTTTTAGGGGTGACGTTGAGAAGAGGACTGCACTTGAGAACTTG
GACTTGATACTTCTCTGCATTGATGAGATTATTGATGGCGGCATAATTCTTGAAACAGAT
GCGAATACCATTGCGGGGAAGGTTGCAACCAATGCTGCTGACGGTTCTGTTCCCTTCTCT
GAGCAGACAATATCCCAAGCTCTGGCCACAGCCAGGGAACACTTTGCAAGATCTCTTCTG
AAGTGAGAAACCACTGCTTCTTCTGTCACCCCTGTTACAACTTGTGTGTGTTTGAGGTCT
GGCTACTATGCTATAGGCCTGGTAGCGGTCACTTAACCAGAAGCGCAACTGTGACAGACA
GATTTGTCTGGATTCTTCTTAAATGATATGTAATACTATTTTCTCGTCAAATGCATGCTG
CGTGTCGTACATTTTCTGGAGGTATAGAGAAATAATTTTTGACGTTAATCCAATTTCTGC
TAAATAACACTCTTCTCAAACCGGAAAGGGCGGATATCGCTTCAACTTTTTTTTTTTTTT
TTTGCCTTTCGTTTATTTCTTTACAAGAATTATGTGTGTTCCCAAGCATGAGCCAGAAGT
GGCCTTATTGATGAAGCGTTATTGCTAGGGGTGTTATGTTAGGAGATGAACCTCTGAAGT
CTTATAGGCAGCCCAAAT



Protein Sequence (189 aa)

>BART1_0-u35721.005 189 150831_barley_pseudomolecules
MGEFSKESCPSVKNILLLDSEGKRVAVKYFSDDWPNNASRLTFEKSIFTKTLKTNARSEA
EITLLDGNIVVYKFVQDLHFFVTAGDDENELIIANVLQGFADSVGLLLRCNLLCFRGDVE
KRTALENLDLILLCIDEIIDGGIILETDANTIAGKVATNAADGSVPFSEQTISQALATAR
EHFARSLLK