Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44413.005

ChromosomeExonStartStopDirection
chr6H1210489211210488267-
chr6H2210489368210489301-
chr6H3210489823210489746-
chr6H4210490007210489916-
chr6H5210490160210490092-
chr6H6210490789210490666-
chr6H7210491070210490947-
chr6H8210492067210491949-
chr6H9210493332210493241-
chr6H10210493711210493511-
chr6H11210494944210494825-
chr6H12210495524210495417-
chr6H13210495694210495591-
chr6H14210497684210497329-


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
morexEMB01.290390
morexETI02.462342.57845
morexLEA000
morexEPI2.182260.8291880.0261245
morexROO1.8251402.51172
morexROO26.179671.448531.0712
morexNOD1.7495703.3594
morexRAC000.0000000557136
morexINF10.01076662.27770
morexINF200.000000008670580.00000000122848
morexCAR5000
morexCAR150.1670070.09105491.34308
morexLEM00.000363390
morexLOD0.000002231930.0000001477572.05578
morexPAL0.7696491.832241.35084
morexSEN0.0004527861.627040.000000390808



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g13110.1 +2 0.0 844 459/530 (87%) protein|serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B, putative, expressed
TAIR PP10 AT1G17720 @ ARAPORT
AT1G17720.2 @ TAIR		 +2 0.0 766 386/509 (76%) Symbols: ATB BETA | Protein phosphatase 2A, regulatory subunit PR55 | chr1:6093949-6098065 REVERSE LENGTH=500
BRACH PP3 Bradi3g08400.4.p +2 0.0 923 488/519 (94%) pacid=32816173 transcript=Bradi3g08400.4 locus=Bradi3g08400 ID=Bradi3g08400.4.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 (2600 bp)

>BART1_0-u44413.005 2600 150831_barley_pseudomolecules
CGCGAAATGCCTCCTCCCCGCAGACAGGAAAGGCAGAAAAGCGCGAGCAATACAGGGGCG
CAGGGGCCGCCTGGAACTCGCTCTCCACATCATTTGGCTGCAGCACCTCACCTCACCTCG
TCTCCACCCCTCGATCTCCGTCGCCGTCTCCCCCCATTCTTCCAGGACCATCCCCCCCTC
CCGATCTACCCCGCCGACGCGGTCGAGATCCTCGTTCCATGGTGTCGTGACGGCGGCAGC
GCTCATGGACCCCAAGTCCCCCGACGACCGCCCGGAGGCGGCGGCACCGCAGCCGCTAGA
GTGGCGGTTCGCGCAGGTCTTCGGCGAGCGCGGTGCTGGCGAGGACGTGCAGGAAGTTGA
CATCATCTCTGCGATCGAGTTTGACAAATCTGGTGATCATCTTGCCACTGGAGATAGGGG
TGGACGTGTAGTTTTGTTTGAAAGAACTGATGCCAGGGGTCTATATATGCAGAATGCCAG
TCGGACAGAGCTTGAGAGACAAGATTATTCGGTGCCCAGGCATCCTGAGTTCCGCTATAA
AACTGAATTTCAGAGTCATGAACCTGAGTTCGATTACCTAAAGAGTTTGGAAATAGAGGA
GAAAATCAACAAGATCAAGTGGGGCCAAATAGCCAACAATGCACTCTTTATCTTGTCTAC
AAATGACAAAACAATCAAGTACTGGAAGGTGCAAGACAAAAAAGTGAAACGAATTTCAGT
AATGAATTTGGATACTTCCCAGAGTGCAGACAATGGGACAACTTCTAGTTCGAGTACCAG
TAGCTCTAGAGGCCTTCCTAATGGAGGATCCTCAGAAAAGTCATACAATTATGCAAACAA
CGATCTGCCATTCCCTCCTGGGGGATATGCATCATTGCGTTTGCCTGTGGTTACAGGCCA
AGAGTTAAACCCTGTTGCTAGATGCCGGCGTGTATATGCACACGCCCATGATTACCATAT
CAATTCCATTTCAAATAATAGTGATGGTGAGACATTCATATCAGCAGATGATCTGCGAAT
TAATCTGTGGAATTTGGAAATCAACAGTCAGAGCTTTAACATTGTTGATGTGAAGCCTGT
AAACATGGAGGATCTAACTGAGGTGATTACATGTGCGGAGTTCCATCCAACTCACTGTAA
TACACTAGCCTATAGTAGCTCAAAGGGCGCTATCAGGCTTATTGACCTGCGGCAATCAGC
ACTGTGTGACAACCATTCTAAGCTATTTGAGGAGCATGAAGCACCTGGATCAAAATCCTT
TTTTACGGAGATAATTGCATCCGTTTCAGATATAAAGTTTGCAAGGGATGGACGGCATAT
TCTTAGTCGTGATTATATGACTCTCAAGTTATGGGATCTCAACATGGATTCAGGCCCAGT
AGCAACTTTCCAAGTTCATGAACATTTAAGGCCTAAGCTTTGCGATCTATATGAAAATGA
TTCAATCTTTGACAAATTTGAATGTTGTCTGAGTGGGGATGGTCATCGTGTTGCGACTGG
CTCTTACAGTAACTTATTTCGTGTTTTTGGTTGTACTCCTGGAAATACCGAGGCAACCAC
TTTAGAAGCAAGCAGAAACCCTATGAGGCGTCAGGTTGCTAATCCAACAAGGCCTACAAG
AACACTGACCTCTTTGACCCGTGCTGTGAGGAGAGGGGGTGAAAATGCAGGAGCCGATGG
CAATGGGAATTCTAATGACTTCTCAACAAAGTTACTCCATCTTGCGTGGCACCCAACTGA
GAACTCCATTGCGTGTGCTGCTGGAAATAGCTTGTACATGTATTATGCATAGGGAATGTG
CTAGAGAAGATTCACTGTTTTTGGTTTGTGCAACGTGAAAGCTTCGGCCTTGCACATGCA
ACCAGAGAAATGGTGCAGAACATTGTCATCAATTCTGTGATTGGGGGTCGGAAGAGGCGG
TTGGCACCCAGGGGATGGATATCCTCCAACTCCAAGCATAGCAGACTATTTCCTTCTGAT
TCTTTAGTAAATGTGAAACACAAATTCTAATCGCACGATTGTAGCTGCATGTGTAGCCAA
AACACCAGCAGTTGGAGGACAGAGCAGAAGATAGCAAGGCTGATTCTAATTTCACTTGGT
CCCAGGAAATATCTGCTTACGGTGGATGTAAGAAATTTTCTTTTCTCTTCATCAAGTGTA
ATGTAATGCCGCCTAGCCAGGTTTAACCATCTGCTGTCACCAACGGTGAAACATCTGTGG
ACATAAATTATGACTTGTAGCCCCCCCCTCCCCCCTCTATTTGTTGGTGGTCGAAACTTA
CAATAAGTTTGCAGGTGTGACTCAACTCCTGCTGCATGTGATCGGCTATGACCTAAGTTG
TATATGCTACATTTTGCCATGCAAAACTCACAACTAATGATATGGATTCTTGAGTATTCA
TGTCTGGCTTTTGCAATATCTATGCATTTTTGCAATCCTCTTTAGATCGTGCATCAATTT
TATTACACAGTAATGCCAGGACATACAATTTTATTACACGGTAATGCCAGGACATTCTGA
TTAGCTCCCTTGTCAGAAGAATATTTGATTTTTCTTATATGTACACAGTCACTAGATTTA
TTGAAATTCTTATAATTTTC



Protein Sequence (515 aa)

>BART1_0-u44413.005 515 150831_barley_pseudomolecules
MDPKSPDDRPEAAAPQPLEWRFAQVFGERGAGEDVQEVDIISAIEFDKSGDHLATGDRGG
RVVLFERTDARGLYMQNASRTELERQDYSVPRHPEFRYKTEFQSHEPEFDYLKSLEIEEK
INKIKWGQIANNALFILSTNDKTIKYWKVQDKKVKRISVMNLDTSQSADNGTTSSSSTSS
SRGLPNGGSSEKSYNYANNDLPFPPGGYASLRLPVVTGQELNPVARCRRVYAHAHDYHIN
SISNNSDGETFISADDLRINLWNLEINSQSFNIVDVKPVNMEDLTEVITCAEFHPTHCNT
LAYSSSKGAIRLIDLRQSALCDNHSKLFEEHEAPGSKSFFTEIIASVSDIKFARDGRHIL
SRDYMTLKLWDLNMDSGPVATFQVHEHLRPKLCDLYENDSIFDKFECCLSGDGHRVATGS
YSNLFRVFGCTPGNTEATTLEASRNPMRRQVANPTRPTRTLTSLTRAVRRGGENAGADGN
GNSNDFSTKLLHLAWHPTENSIACAAGNSLYMYYA