Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u26461.017

ChromosomeExonStartStopDirection
chr4H11355329313552805-
chr4H21355433013554251-
chr4H31355458213554412-
chr4H41355570813555595-
chr4H51355606213555928-
chr4H61355627013556187-
chr4H71355771813557579-
chr4H81355979013559662-
chr4H91356001913559901-


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
morexEMB1.9281400
morexETI0.84923102.35766
morexLEA1.898820.1789061.50208
morexEPI1.817591.652713.21163
morexROO0.7030740.9932050.138469
morexROO21.317081.129141.12209
morexNOD4.061421.606020.334506
morexRAC6.741918.475947.36043
morexINF12.967852.183321.51853
morexINF20.00007013493.905534.25241
morexCAR52.412392.114220
morexCAR150.00010062600
morexLEM5.58884.407446.16397
morexLOD0.3919932.500453.24516
morexPAL6.471887.292656.87834
morexSEN0.03889510.4078380



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g42350.1 +2 8e-87 273 158/303 (52%) protein|ankyrin, putative, expressed
TAIR PP10None-----
BRACH PP3 Bradi2g23634.1.p +2 5e-93 288 161/301 (53%) pacid=32774779 transcript=Bradi2g23634.1 locus=Bradi2g23634 ID=Bradi2g23634.1.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 (1461 bp)

>BART1_0-u26461.017 1461 150831_barley_pseudomolecules
GAAAATCCTGCGTCATATCGTATCTAACTCGATGGGTCTACTTTGTTTGTCTTGGGGAGC
CATATCTAAATTCTATGCTCTCAGAGAAGACAGGGCAGTGTTAGGAAACTTCTGTGGTGG
TAGAACACCTCTGTTTTTTGCAACATACTGCAATGGGGGTACTGCTGAGTATCTTCTTGA
TCATGGAGCTAATCCAGACAAAGCCGATAACAATGGGGGTTTCCTGTTACATTATGCTGC
TGAAATAGGTAGTTGTGAAATGGTAGAGCTTTTGCTTGCAAAAGGAGCTTACGTTGACCC
GGTATGTGCTCGTGGAACACCACTTCATATTGCTGCTGGTGGAGGGCAGTATGGTGCTAT
GAAGATTTTATTGGACCACAGTGCAGATTACAACAAGATGGTAGATGGTGTGACACCTCT
TATGGCTGCTAAAGATGCCAACTCAACGGAATGTATCAAGCTCCTAGTTAAGCTGTGGCA
TCCTGCAATTTGTGACCCCTTGTACCGGACACTTCCACAACCATTTAAAAAAAAACTTGT
CGCATATTGAGGCTGGGGAGGACTTCTGCATATGTGCCATGTTGATATTAATAGTTACCT
CAACATGGTTCAGAAGGAGCCTATGCTTAAACGAGAAATCACGGCATCAGAGCTTATATC
ACTAGGGAGTATCTCTTTAAAGAAAAAAGATTATGTTGTCGCAGCAAAATTGTACAGTCA
GGCAATGCAGCTTGATCCTGGTGATGCAGTCTTGCTCTCAGACAGGAGCCTTTGTTGGCT
TCACATGGGATATGGAAGAAAGGCTTTGCTAGATGCTAATCAATGCAGAAAAATGCGGCC
TCTCTGGCCAAAAGCTTGTCGCCGGCAGGGTGAAGCTCTGATGCTACTGAAGGACTATGA
GGGTGCAAGTGAACGGTTCTTGGATGGACTCAAATTGGACCCAGTGGACACTGCTATCGA
GGATGCATTACGGGAAGCTATGAAGTCCTTGATGACGTCTCGGAGCACGAAAGCCAATTG
ACTATTTGCGTGTCGCAGGGAAATCAGCTGAAGACTTGAAACGGGTCAGGAGTTTCTCCA
TTTTGCGCAAAGACCGATTTCCTTTAGAAAGTAAAGCGACGTGTCTCATGGCCTGATGAG
AGTGTATTACCGTCGGCATGTTTTGTATGAGCATGACTGTTGATGCTTGCAGTAGTACCC
CGCGGAAACTCGTCAGTTGCCATCTATCTGTCGTGTATTACAGGCTCTTATGTCAGGTAT
TTGGGTCTTCTGAAGCTCACTCGTCTGCCGCTCCTGGTGCAGCGTCCCCGAATGATCGCA
GCCTCTGCATTTGTCTTGTTGCGGTTTTGCTGAATTGCCTCCTGGCTCTGTAGTGTTTTA
ACTACTCAACGATGGTACAATGTAGTGAAGATGGAGATATCTTGTGTAGGTTTTCTTCGT
CCTGTGGGTGCATAATTAGAG



Protein Sequence (182 aa)

>BART1_0-u26461.017 182 150831_barley_pseudomolecules
KILRHIVSNSMGLLCLSWGAISKFYALREDRAVLGNFCGGRTPLFFATYCNGGTAEYLLD
HGANPDKADNNGGFLLHYAAEIGSCEMVELLLAKGAYVDPVCARGTPLHIAAGGGQYGAM
KILLDHSADYNKMVDGVTPLMAAKDANSTECIKLLVKLWHPAICDPLYRTLPQPFKKKLV
AY