Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44413.004

ChromosomeExonStartStopDirection
chr6H1210489196210488264-
chr6H2210489368210489301-
chr6H3210489823210489746-
chr6H4210490007210489916-
chr6H5210490160210490092-
chr6H6210490789210490666-
chr6H7210491070210490947-
chr6H8210492067210491949-
chr6H9210493332210493241-
chr6H10210493711210493511-
chr6H11210494944210494825-
chr6H12210495512210495417-
chr6H13210495694210495591-
chr6H14210497756210497329-


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
morexEMB15.909920.107220.5974
morexETI3.325286.388075.45636
morexLEA5.790127.2788110.9234
morexEPI4.8319314.110410.5273
morexROO7.688919.450462.35212
morexROO220.241924.52520.7235
morexNOD9.351166.44795.17653
morexRAC14.992216.143618.6488
morexINF122.507319.215322.2149
morexINF218.160619.558113.1579
morexCAR512.639611.498417.3874
morexCAR154.867551.902664.43014
morexLEM6.811916.8330211.2009
morexLOD15.461214.123823.1207
morexPAL7.4325911.445718.2141
morexSEN11.55599.7031610.0269



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g13110.1 +2 0.0 864 455/526 (87%) protein|serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B, putative, expressed
TAIR PP10 AT1G17720 @ ARAPORT
AT1G17720.2 @ TAIR		 +2 0.0 779 384/506 (76%) Symbols: ATB BETA | Protein phosphatase 2A, regulatory subunit PR55 | chr1:6093949-6098065 REVERSE LENGTH=500
BRACH PP3 Bradi3g08400.4.p +2 0.0 946 483/515 (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 (2648 bp)

>BART1_0-u44413.004 2648 150831_barley_pseudomolecules
CGCCCGATGACCTACTTTTTTCGTGTAACAAGGAAAACTGGACAGCAAATTCGTACTTTT
TGGGGGACCAAACGCGAAATGCCTCCTCCCCGCAGACAGGAAAGGCAGAAAAGCGCGAGC
AATACAGGGGCGCAGGGGCCGCCTGGAACTCGCTCTCCACATCATTTGGCTGCAGCACCT
CACCTCACCTCGTCTCCACCCCTCGATCTCCGTCGCCGTCTCCCCCCATTCTTCCAGGAC
CATCCCCCCCTCCCGATCTACCCCGCCGACGCGGTCGAGATCCTCGTTCCATGGTGTCGT
GACGGCGGCAGCGCTCATGGACCCCAAGTCCCCCGACGACCGCCCGGAGGCGGCGGCACC
GCAGCCGCTAGAGTGGCGGTTCGCGCAGGTCTTCGGCGAGCGCGGTGCTGGCGAGGACGT
GCAGGAAGTTGACATCATCTCTGCGATCGAGTTTGACAAATCTGGTGATCATCTTGCCAC
TGGAGATAGGGGTGGACGTGTAGTTTTGTTTGAAAGAACTGATGCCAGGGGTAATGCCAG
TCGGACAGAGCTTGAGAGACAAGATTATTCGGTGCCCAGGCATCCTGAGTTCCGCTATAA
AACTGAATTTCAGAGTCATGAACCTGAGTTCGATTACCTAAAGAGTTTGGAAATAGAGGA
GAAAATCAACAAGATCAAGTGGGGCCAAATAGCCAACAATGCACTCTTTATCTTGTCTAC
AAATGACAAAACAATCAAGTACTGGAAGGTGCAAGACAAAAAAGTGAAACGAATTTCAGT
AATGAATTTGGATACTTCCCAGAGTGCAGACAATGGGACAACTTCTAGTTCGAGTACCAG
TAGCTCTAGAGGCCTTCCTAATGGAGGATCCTCAGAAAAGTCATACAATTATGCAAACAA
CGATCTGCCATTCCCTCCTGGGGGATATGCATCATTGCGTTTGCCTGTGGTTACAGGCCA
AGAGTTAAACCCTGTTGCTAGATGCCGGCGTGTATATGCACACGCCCATGATTACCATAT
CAATTCCATTTCAAATAATAGTGATGGTGAGACATTCATATCAGCAGATGATCTGCGAAT
TAATCTGTGGAATTTGGAAATCAACAGTCAGAGCTTTAACATTGTTGATGTGAAGCCTGT
AAACATGGAGGATCTAACTGAGGTGATTACATGTGCGGAGTTCCATCCAACTCACTGTAA
TACACTAGCCTATAGTAGCTCAAAGGGCGCTATCAGGCTTATTGACCTGCGGCAATCAGC
ACTGTGTGACAACCATTCTAAGCTATTTGAGGAGCATGAAGCACCTGGATCAAAATCCTT
TTTTACGGAGATAATTGCATCCGTTTCAGATATAAAGTTTGCAAGGGATGGACGGCATAT
TCTTAGTCGTGATTATATGACTCTCAAGTTATGGGATCTCAACATGGATTCAGGCCCAGT
AGCAACTTTCCAAGTTCATGAACATTTAAGGCCTAAGCTTTGCGATCTATATGAAAATGA
TTCAATCTTTGACAAATTTGAATGTTGTCTGAGTGGGGATGGTCATCGTGTTGCGACTGG
CTCTTACAGTAACTTATTTCGTGTTTTTGGTTGTACTCCTGGAAATACCGAGGCAACCAC
TTTAGAAGCAAGCAGAAACCCTATGAGGCGTCAGGTTGCTAATCCAACAAGGCCTACAAG
AACACTGACCTCTTTGACCCGTGCTGTGAGGAGAGGAGCCGATGGCAATGGGAATTCTAA
TGACTTCTCAACAAAGTTACTCCATCTTGCGTGGCACCCAACTGAGAACTCCATTGCGTG
TGCTGCTGGAAATAGCTTGTACATGTATTATGCATAGGGAATGTGCTAGAGAAGATTCAC
TGTTTTTGGTTTGTGCAACGTGAAAGCTTCGGCCTTGCACATGCAACCAGAGAAATGGTG
CAGAACATTGTCATCAATTCTGTGATTGGGGGTCGGAAGAGGCGGTTGGCACCCAGGGGA
TGGATATCCTCCAACTCCAAGCATAGCAGACTATTTCCTTCTGATTCTTTAGTAAATGTG
AAACACAAATTCTAATCGCACGATTGTAGCTGCATGTGTAGCCAAAACACCAGCAGTTGG
AGGACAGAGCAGAAGATAGCAAGGCTGATTCTAATTTCACTTGGTCCCAGGAAATATCTG
CTTACGGTGGATGTAAGAAATTTTCTTTTCTCTTCATCAAGTGTAATGTAATGCCGCCTA
GCCAGGTTTAACCATCTGCTGTCACCAACGGTGAAACATCTGTGGACATAAATTATGACT
TGTAGCCCCCCCCTCCCCCCTCTATTTGTTGGTGGTCGAAACTTACAATAAGTTTGCAGG
TGTGACTCAACTCCTGCTGCATGTGATCGGCTATGACCTAAGTTGTATATGCTACATTTT
GCCATGCAAAACTCACAACTAATGATATGGATTCTTGAGTATTCATGTCTGGCTTTTGCA
ATATCTATGCATTTTTGCAATCCTCTTTAGATCGTGCATCAATTTTATTACACAGTAATG
CCAGGACATACAATTTTATTACACGGTAATGCCAGGACATTCTGATTAGCTCCCTTGTCA
GAAGAATATTTGATTTTTCTTATATGTACACAGTCACTAGATTTATTGAAATTCTTATAA
TTTTCCCG



Protein Sequence (506 aa)

>BART1_0-u44413.004 506 150831_barley_pseudomolecules
MDPKSPDDRPEAAAPQPLEWRFAQVFGERGAGEDVQEVDIISAIEFDKSGDHLATGDRGG
RVVLFERTDARGNASRTELERQDYSVPRHPEFRYKTEFQSHEPEFDYLKSLEIEEKINKI
KWGQIANNALFILSTNDKTIKYWKVQDKKVKRISVMNLDTSQSADNGTTSSSSTSSSRGL
PNGGSSEKSYNYANNDLPFPPGGYASLRLPVVTGQELNPVARCRRVYAHAHDYHINSISN
NSDGETFISADDLRINLWNLEINSQSFNIVDVKPVNMEDLTEVITCAEFHPTHCNTLAYS
SSKGAIRLIDLRQSALCDNHSKLFEEHEAPGSKSFFTEIIASVSDIKFARDGRHILSRDY
MTLKLWDLNMDSGPVATFQVHEHLRPKLCDLYENDSIFDKFECCLSGDGHRVATGSYSNL
FRVFGCTPGNTEATTLEASRNPMRRQVANPTRPTRTLTSLTRAVRRGADGNGNSNDFSTK
LLHLAWHPTENSIACAAGNSLYMYYA