Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u05013.004

ChromosomeExonStartStopDirection
chr1H1500969286500968566-
chr1H2500971410500970876-
chr1H3500971884500971530-


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
morexEMB4.312564.924542.15129
morexETI2.787973.850115.95851
morexLEA2.79391.473981.24683
morexEPI2.047191.607342.03265
morexROO5.272223.734031.16302
morexROO28.479037.82078.33346
morexNOD10.101621.27715.34455
morexRAC36.065839.306637.4789
morexINF14.883627.099116.5485
morexINF213.102113.457410.0902
morexCAR512.64849.6819910.2281
morexCAR151.182370.9776971.01108
morexLEM10.05086.0743612.4405
morexLOD15.471915.726819.1193
morexPAL17.170215.914818.5998
morexSEN1.835031.380551.43506



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os05g37900.1 +1 1e-88 274 159/217 (73%) protein|zinc finger, C3HC4 type domain containing protein, expressed
TAIR PP10 AT5G05830 @ ARAPORT
AT5G05830.1 @ TAIR		 +1 7e-45 157 89/159 (56%) Symbols: | RING/FYVE/PHD zinc finger superfamily protein | chr5:1755910-1756825 FORWARD LENGTH=204
BRACH PP3 Bradi2g23610.2.p +1 3e-94 288 177/240 (74%) pacid=32776793 transcript=Bradi2g23610.2 locus=Bradi2g23610 ID=Bradi2g23610.2.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 (1611 bp)

>BART1_0-u05013.004 1611 150831_barley_pseudomolecules
CCTCGCCTCCTCCTGTTCCTCCCCCGACAAGCACAGAACTCGTCTTTTCTCCTTTCTCTT
TTCCCCCTCGCCTCACTCACTCACTGCCAGTACAGTACAATCCCTCCGCTCTTTATTCCC
CTCGCCTCCGACTCGCCCTTGTCCCCTTGCGTGTCCGTCCCGCGGTCATGGATCAAGAAA
CCTCACGAGAACCCCGCCGCTCCAGCCGTATGTCGCCGCATTAGTCGGGGGGAGGGCCCA
GTCCCCGCCGGATCGCTCCTCGCGATCGCATTGCATGCGCGCCTCTTGATCTTGTCTTTA
TCCTGGACACGGATTGGTTTCCGTCGCCGGATTCGGAGCGGCGGCATTCTGGTTGGCCGC
GTCTGAGGAGGAGGAGCGATGGTCGGCGACGGCGCGCGGTCGGCAGTCGCCGCCGGGGTC
CAAGACATCGAGCTCGGCGAGCGGCGCCGCGGTGATGAGTTCCTGGACGACGACGGCGAG
GAGGAGGAGGAGGAGGGCAGCCAGTACTTCACGGACGCGGAGGACCGGTCGTGGCCCTCG
CACTCGCGCCACGAGTCCGCCGCCTTCGAGGACTGCATCTCGCGGTGCTCCTGCGGCGGC
GCCGACAGCGACGCGGACATCGAGGCCGGCGGCGGGCACTTCAGGAAGTCGTCCTGCGTG
TCCGAGTGCTCGCTGGACGACGTCGACCTGGAGGCCGGGCTGGCCGAGAGCGCCAAGGGC
AGCCCCGACCCCGAGAAGGCCGAGAGGAACTGCCGCATTTGCCACCTCGGCCTCGAGAGC
GCGGCGGCCGAGTCCGGCGCCGGCATCACGCTCGGCTGCTCCTGCAAGGGCGACCTCTCC
TACTCCCACAAGCAGTGCGCCGAGACCTGGTTCAAGATCAGAGGCAACAAGACCTGTGAA
ATTTGCAGCTCAGTCGCATGCAATGTGGTAGTTTTAGGCGATCCAGAGTTCACCGAGCAG
TCGAATGAATCAACTACCGCAGCAGCCGGGCATACATTTCCAACCGAAACTAGGAGGTTT
TGGCAAGGGCACCGGTTCCTCAACTTCCTTCTAGCATGCATGGTTTTCGCCTTCGTCATC
TCATGGCTCTTCCACTTCAATGTCCCGGGGTGAGTTCTCGCAGCCAATGGCCCCTCAATA
AAAGCCACAGGGCCATTGAGGCAAACATGTGGGTCAGATTCAGCAAATCTGGAGAGCGGG
ATGAGGTGAAGTTATTAAGCAGTGAAGAGGTACAAATGAGTGTGTATGTGGGGCGCGACG
GCCTTAAGTTTCTCTGGATCAGGATCCGGTACGAAAGAAGCCCTGATGAAGATCTGCCGC
CGTTCATGAATTTGGGTGAAGGTAGCAAACAGCGAAGAAGAGAAGGTGTGTTGTTCCGGG
ATTGTTTTAGGTTTGAAGGACATGTTTTATGTTAGTGTCGTCGTTTCCTTTAGCTTGGCC
GTTTTCGCCTTGTGAGTTGGTGTGATATGTGCAGATTTTGTTTTATGCCTTCCATCCAGT
GTTTATAATCCTGATAAACAGGATGAGGTGGTAGCTGTGCTTAGCAGGAAGAGAAACCCC
ACTGCCAGCTCAGGTTCCGAATAATGAAGAGAAAATGTTTTTGAGACGCTT



Protein Sequence (244 aa)

>BART1_0-u05013.004 244 150831_barley_pseudomolecules
MVGDGARSAVAAGVQDIELGERRRGDEFLDDDGEEEEEEGSQYFTDAEDRSWPSHSRHES
AAFEDCISRCSCGGADSDADIEAGGGHFRKSSCVSECSLDDVDLEAGLAESAKGSPDPEK
AERNCRICHLGLESAAAESGAGITLGCSCKGDLSYSHKQCAETWFKIRGNKTCEICSSVA
CNVVVLGDPEFTEQSNESTTAAAGHTFPTETRRFWQGHRFLNFLLACMVFAFVISWLFHF
NVPG