Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u35721.008

ChromosomeExonStartStopDirection
chr5H1405760204405760092+
chr5H2405760512405760429+
chr5H3405761523405761364+
chr5H4405762633405762486+
chr5H5405762807405762730+
chr5H6405763442405763358+
chr5H7405763590405763535+
chr5H8405766020405765455+


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
morexEMB00.7343190.25702
morexETI000
morexLEA0.27586800
morexEPI000
morexROO01.636080.573805
morexROO20.20550300
morexNOD3.7643300
morexRAC000
morexINF11.163151.443340
morexINF20.8663610.7453421.64723
morexCAR52.569962.842172.60072
morexCAR1500.1772580
morexLEM000
morexLOD000
morexPAL00.1893630
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g21250.2 +3 1e-99 295 170/182 (93%) protein|clathrin adaptor complex small chain domain containing protein, expressed
TAIR PP10 AT3G09800 @ ARAPORT
AT3G09800.1 @ TAIR		 +3 1e-72 226 127/178 (71%) Symbols: | SNARE-like superfamily protein | chr3:3006731-3007916 REVERSE LENGTH=179
BRACH PP3 Bradi4g08770.4.p +3 3e-104 307 177/182 (97%) 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 (1290 bp)

>BART1_0-u35721.008 1290 150831_barley_pseudomolecules
CTCGCCTAATCCCTCCCGTCTTTCTCTACACTCGTCTGCTGCATCTCAGATCTCGCGGGC
ACCAACAAACCAAAGCAAAGCTCTCCCGCTGTCCCGATCACTCTCCCTTCCAGGTGCGTT
TCTTTCTTCGGCAGGAAGCTTGGACCGGAGGAAGGTGCTGAGAGGGCGGAAAGGAGGCCA
TGGGGGAATTCTCCAAGGAATCTTGCCCGTCTGTGAAGAACATTTTGCTACTGGATTCTG
AGGGAAAGCGCGTTGCTGTGAAGTACTTCTCGGATGATTGGCCGAACAACGCATCTAGGT
TGACCTTTGAAAAGTCCATTTTTACTAAAACTCTGAAGACAAATGCACGCTCAGAAGCTG
AGATAACATTGCTTGATGGTAATATTGTTGTTTACAAGTTTGTACAAGACCTTCACTTCT
TCGTCACTGCCGGAGATGATGAGAATGAGCTAATCATAGCAAATGTGCTACAGGGTTTTG
CTGATTCGGTTGGTCTTCTACTCAGGGGTGACGTTGAGAAGAGGACTGCACTTGAGAACT
TGGACTTGATACTTCTCTGCATTGATGAGATTATTGATGGCGGCATAATTCTTGAAACAG
ATGCGAATACCATTGCGGGGAAGGTTGCAACCAATGCTGCTGACGGTTCTGTTCCCTTCT
CTGAGCAGACAATATCCCAAGCTCTGGCCACAGCCAGGGAACACTTTGCAAGATCTCTTC
TGAAGTTTACCCTACCAAACGAATTTCAAATGCCACAAAACTTTAATATGATTTTTTCTG
GACTATATGAAGACCTGCAAGCATCAGAAGTGGACGAGAGGCCGAACGAGGTAGGCACAA
GCCAACAGGGCGCGGCCGCGCCCTAATGACTTGTGCCCCCCTAGATGCCTCCCGCCGTCC
CTCTCTGACCTATAAATTCACAAATATTCCGATGCACTCCCGAAACACTTTTTCCGCCGC
CGCAAGTCTCTGTTCTGACGGAAGGCCATCTAAACCTCCATTCCGGCGATCTGTCGGAGG
GGAGATCAGTCACGGAGGGCCTCTACATCAACCTTGTTGCCCTCACCGTGATGTGTGAGT
AGTTTACCACATACCTACGGGTCCGTAGGCAGTACCTAGATGACAATCTCTCTCTCTTAT
GATCTTCAATACCATGTTCATCGCATCTTCGCTTTGATCTATCCGATGTAATCACTATGT
ATGGTGTGTTTGTTGGGGTCCGATGAATTGTGGGTTTATGTTCAGATTATTCATGAAAAG
TATTTGAGTCATCTCTGATTATTATGATTC



Protein Sequence (228 aa)

>BART1_0-u35721.008 228 150831_barley_pseudomolecules
MGEFSKESCPSVKNILLLDSEGKRVAVKYFSDDWPNNASRLTFEKSIFTKTLKTNARSEA
EITLLDGNIVVYKFVQDLHFFVTAGDDENELIIANVLQGFADSVGLLLRGDVEKRTALEN
LDLILLCIDEIIDGGIILETDANTIAGKVATNAADGSVPFSEQTISQALATAREHFARSL
LKFTLPNEFQMPQNFNMIFSGLYEDLQASEVDERPNEVGTSQQGAAAP