Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u25435.025

ChromosomeExonStartStopDirection
chr3H1681733477681733156-
chr3H2681734115681733967-
chr3H3681734573681734396-
chr3H4681734745681734683-
chr3H5681735055681734894-
chr3H6681735390681735231-
chr3H7681735974681735866-
chr3H8681736144681736050-
chr3H9681736609681736477-
chr3H10681737010681736938-
chr3H11681737704681737606-
chr3H12681737948681737800-
chr3H13681738516681738306-
chr3H14681738721681738587-
chr3H15681738879681738807-
chr3H16681739133681738961-
chr3H17681739955681739754-


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
morexEMB05.856224.50214
morexETI0.00004032494.8803413.6277
morexLEA0.2975245.308313.64438
morexEPI0.4026080.00005482681.7144
morexROO3.854544.198680.5212
morexROO27.710464.484294.77144
morexNOD0.874623.71676.83141
morexRAC5.563853.070452.31448
morexINF115.783623.588817.7117
morexINF27.6734421.409419.2449
morexCAR51.973326.075718.65573
morexCAR151.475700
morexLEM12.1158.117874.35181
morexLOD8.2595412.88189.11906
morexPAL3.674140.9560652.85107
morexSEN1.992812.589793.56669



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os01g72880.1 +2 0.0 1171 617/736 (84%) protein|DNA mismatch repair protein Mlh1, putative, expressed
TAIR PP10 AT4G09140 @ ARAPORT
AT4G09140.1 @ TAIR		 +2 0.0 897 481/737 (65%) Symbols: ATMLH1, MLH1 | MUTL-homologue 1 | chr4:5817107-5821035 REVERSE LENGTH=737
BRACH PP3 Bradi2g61370.1.p +2 0.0 1258 656/736 (89%) pacid=32771966 transcript=Bradi2g61370.1 locus=Bradi2g61370 ID=Bradi2g61370.1.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 (2486 bp)

>BART1_0-u25435.025 2486 150831_barley_pseudomolecules
CGGGGAGCCGCCCCGCATCCGGCGGCTGGAGGAGTCGGTGGTGAACCGCATCGCCGCGGG
GGAGGTGATCCAGCGGCCCTCGTCGGCGGTGAAGGAACTCGTCGAGAACAGCATCGACGC
CGGCTCCTCCACCATCTCCGTCACCGTCAAGGACGGGGGCCTCAAGCTCATCCAGGTCTC
GGACGACGGCCACGGCATCCGGTGTGAGGACTTGCCAATATTGTGTGAGAGGCATACTAC
CTCAAAGTTGTCTGCATATGAGGATCTACAGACAATAAAGTCCATGGGGTTCAGAGGGGA
GGCTTTGGCCAGTATGACTTATGTTGGCCATGTTACCGTGACAACAATAACAGAAGGCCA
ACTGCATGGCTACAGAGTTTCTTATAGGGATGGAGTAATGGAGAATGACCCAAAGCCCTG
TGCTGCGGTTAAAGGAACTCAAATCATGGTTGAAAATTTATTCTACAATATGGTAGCTCG
TAGGAAAACACTGCAGAACTCCAATGATGACTATCCAAAGATAGTGGACTTCATCAGTCG
GTTTGCAGTCCATCACATCAATGTGAACTTCTCTTGCAGAAAGCATGGAGCCAATAGAGC
AGATGTTCACAGTGGGAGCACATCTTCAAGGCTAGATGCTATCAGGAATGTCTATGGGGC
TTCGGTTGTTCGTGATCTGATGGAAATACAGGTTTCAGATGAGAATGCTGTAGATGAAAT
ATTCAAGATGGATGGTTTCATCTCAAATGCAAATTATGTGGCAAAGAAGACTACTATGAT
TCTTTTCATAAATGATCGACTTGTAGATTGCACTTCTTTGAAAAGAGCTACTGAATTTGT
GTACTCTGCAATACTGCCTCAAGCATCGAAACCCTTCATATACATGTCCATCAATCTTCC
ACCAGAACACGTGGATGTCAATATACATCCAACCAAAAAGGAGGTTAGCCTCTTAAATCA
AGAGCGTATTATTGAAAAAATTAAAGATGCCATCGAGGAAAAACTGGTGAACTGTAATAA
CACAAGGATATTCCAAACTCAGGCACTAAACCCTTCAGCACTTACTCAAGCTAACACACG
AAAGGACATGGGTACCGAGGTCAGCACGCCTACTGGAGAAAAATCTCAAAAGATTCCTGT
GAGCCAAATTGTCAGAACAGATCCTCGCGATCCATCTGGAAGGTTGCACACCTATTGGCA
AGGTCAAACTTCAAATCTTGAAAAGAAGTCTGACCTTGTTGCCGTAAGAAATATTGTAAG
ATCAAGAAGGAATCCAAAAGATGCTGGTGATTTGTCCAGTCGCCATGAGCTTGTTACAGA
AATAGATTCTAACTTACATCCTGGCCTTTTCGATATTGTTAAGAATTGCACATATGTTGG
AGTTGCGGATGAAGTTTTCGCTTTGATACAACACAATACCCTCTTATACCTTGTCAATGT
GGTAAATGTTAGCAAAGAACTCATGTACCAACAAGCCTTGTGCCGTTTTGGGAACTTCAA
TGCTATAAAACTCAGTGAACCAGCTCCACTTCTGGAGTTGCTGAGAATGGCACTGAAAGA
TGACGAGTCAATGAGTGATGTAAATGAGAAGGAGAAACTAGAAATTGCAGAAGTGAACAC
TGAGATACTGAAAGAAAATGCTGAGATGATTAATGAGTACTTCTCTATTCACATTGATCA
AGGTGGCAACCTGACCAGACTTCCTGTTGTACTTGATCAGTACACTCCTGATATGGATCG
CCTTCCAGAGTTCATGTTGAGTCTAGGAAATGATATATGGCAGCCAGCTGTCCAGAAGTA
ACTTATGTTTCTTATTTTGTACTGTATAAGTCACTTGATTACCTGGGACGTTGAGAAAGA
GTGCTTCAGAACGGCAGCAGCTGCTATCGGAAACTTCTATGCGCTTCATCCTCCCATCCT
TCCAAATCCATCTGGCAAAGGCATTCAGTTATACAAGAAAAATAAAGATTGCATGGGAAG
TGCTGAACAGGCTGATAACAATTTACCAAGTACAGATGAAGATGACATCGATCAAGAGCT
GCTTGCGGAAGCAGAGGCAGCATGGGCTCAACGTGAGTGGACCATCCAGCACGTCTTGTT
CCCGTCGATGCGACTTTTCCTCAAGCCCCCTAAGTCGATGGCAACTGATGGAACGTTTGT
CCAGATTGCTTCTCTAGACAAGCTTTACAAGATCTTCGAGAGATGCTAGCCGACAAGCGG
CATGTCGAGAAGGAAGGGAAGAGCGCGACGCGACCGACGCCCTTGCCGGTTCCTTCCGGG
ACGTGTGTATATAATGCGGTGTCACTGTTTTTTCCCCCCTTTTTCCGATAGGGCTGTAAA
TATTTTTGAAGGACGAGCAAAGTTTGCTGGGCTCCAGCTCAGCCCTGGAATTGAATGGCA
AATGCACGAATGATTTGGCTCTGCTACGCAATGCTGTCATTGTTGTTTCCCTCTAATGAC
CCCGCTGGCAGATATGTCATGCCCTC



Protein Sequence (599 aa)

>BART1_0-u25435.025 599 150831_barley_pseudomolecules
GEPPRIRRLEESVVNRIAAGEVIQRPSSAVKELVENSIDAGSSTISVTVKDGGLKLIQVS
DDGHGIRCEDLPILCERHTTSKLSAYEDLQTIKSMGFRGEALASMTYVGHVTVTTITEGQ
LHGYRVSYRDGVMENDPKPCAAVKGTQIMVENLFYNMVARRKTLQNSNDDYPKIVDFISR
FAVHHINVNFSCRKHGANRADVHSGSTSSRLDAIRNVYGASVVRDLMEIQVSDENAVDEI
FKMDGFISNANYVAKKTTMILFINDRLVDCTSLKRATEFVYSAILPQASKPFIYMSINLP
PEHVDVNIHPTKKEVSLLNQERIIEKIKDAIEEKLVNCNNTRIFQTQALNPSALTQANTR
KDMGTEVSTPTGEKSQKIPVSQIVRTDPRDPSGRLHTYWQGQTSNLEKKSDLVAVRNIVR
SRRNPKDAGDLSSRHELVTEIDSNLHPGLFDIVKNCTYVGVADEVFALIQHNTLLYLVNV
VNVSKELMYQQALCRFGNFNAIKLSEPAPLLELLRMALKDDESMSDVNEKEKLEIAEVNT
EILKENAEMINEYFSIHIDQGGNLTRLPVVLDQYTPDMDRLPEFMLSLGNDIWQPAVQK