Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u43238.003

ChromosomeExonStartStopDirection
chr6H16421527064214315-
chr6H26421564664215404-
chr6H36421657364216523-
chr6H46421755264217463-
chr6H56421922764219027-
chr6H66421973764219411-
chr6H76421996164219846-
chr6H86422092564220808-
chr6H96422117364221008-
chr6H106422230164221836-
chr6H116422329364223180-


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
morexEMB3.527054.352215.24107
morexETI7.6979810.202610.0906
morexLEA5.333710.4781866.4108
morexEPI1.840563.115221.51329
morexROO4.19614.152941.29058
morexROO25.490674.990225.18444
morexNOD5.110818.65555.76916
morexRAC12.737715.441913.5808
morexINF18.4687914.20110.7661
morexINF216.696415.472916.439
morexCAR52.165389.762257.55926
morexCAR1510.5958.234449.97732
morexLEM10.940310.80688.3166
morexLOD13.829516.47313.3093
morexPAL11.397212.184311.5992
morexSEN4.261668.20654.44405



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g05450.1 +3 0.0 713 445/750 (59%) protein|Homeobox domain containing protein, expressed
TAIR PP10 AT4G29940 @ ARAPORT
AT4G29940.2 @ TAIR		 +3 2e-46 179 89/180 (49%) Symbols: PRHA | pathogenesis related homeodomain protein A | chr4:14648346-14652710 REVERSE LENGTH=769
BRACH PP3 Bradi3g03747.3.p +3 0.0 1005 554/750 (74%) pacid=32817691 transcript=Bradi3g03747.3 locus=Bradi3g03747 ID=Bradi3g03747.3.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 (2848 bp)

>BART1_0-u43238.003 2848 150831_barley_pseudomolecules
NNNNNNNNNNGCCCCCGCCGGCTTCCAATTGGAGGAATTCGGATCTCCTCCCCCTCCTCC
TCCTCCTCTGCTGGGCTTGCTTGGAGCGGAGATCCACCGGGGCCTCAGCTCTCGGACTCA
GTCGGATGTGATACTATCAAGTTCTGACAATGAATAATTCAGACAAGAAGTCGGTATGCT
CCATTCCTAGAAGATCATCAGAACGTAGGAAACCGTCCTCTTCTGAGTTGGTTTCTTCAG
CAAAAAGGCCAACTCGCCACAACACCTCCAGCAGTTATAAGCCAGATCATTGTTCTCCTC
CCAAGAGAACAGTAAGAACAGTCAGGAATGTTAATCTGGCAAAATATGTAAAGAACAAGT
ATTATCGTAGTCCTCTGAGCAAGCGGCAGGCTTCAAATGTTGCTACTGGAAAAACTGCAA
CAGGACCAGTCAGGAGGAGGAACCGGAAACGGAGAAGGCACAACACTGATTGTGACGAGG
CAAGTCGCATGGAAAGAAGGGCGAGCTATTTGCTGGTCAAAATAAAAACGGAGCAGAATT
TAATAGATGCATACTCTGGAGATGGCTGGAATGGGCACAGCCGAGAGAAATTAAAGCCAG
ATAAGGAGCTACAGCGTGCTAAGAAACAGATCATTAAATGCAAAATTGCTATCCGTGATA
TTATCCATCAACTTGATTTGTATAGTTCAAGTGGGAGCATGGAAGATTCCGTGATGCCTC
CAGATGAGTCTGTTAACCCTGATAATACCATATGTTCAAGATGCAAATCTCCTGAATCAG
TTCCCAACAATAAATTTATCTTCTGTGAAGGGCCCTGCAAAATGGCGTACCATCAGAAAT
GTTCAGAACCTCCTCTAGACAAAAGTCTTCCTACTGGTGGTCCTGGATGGCTTTGTAAAT
TCTGTTTGTGCAAGATGAAAATTTTAGAAGCTGTTAATGCACATTTGGGAATGAGCCTTA
CAGTGATGTGTCCCTCTAAAGATATTTTTAAGGAAGCAACTGAACAGATGGACTCTGAGG
ATGGACTAGGAGAGGATTGGTTATCTGAGTATTCAGGTGATGAGGACTATGACCCTGAAG
AAAATGACTTCACAAGCAGCAGCCTGGATAGTGGTGAAGAAAGGATATCTGATCAGTCCA
ATTGTTCAGGAAGTCCGCTTTATTCTCCAAACGATGATATTCCAGGCTTTATATCAGCAG
ATTTCACTGATGCGGAAGGATTCTACCACACCAATTCAAATTTAGGAATTGATTCTGGGG
ATGATGATGCTGCCGAGATGCTTACCTACCAAAGGCCAAAGAAAGAGGAAATGTTTGGAA
AGCTGACTGACAATGAAAAGCAGAGTGAAGATGAAGATTGGGGTACTAGTAATAAGAGAA
AGAAAAGAAGAGTGGATTCAGCTGGTGTTGGAGTTAAGTCTGCCGAGGGTTTCTCAGATG
TAAAATCAAATGAGAAAGTCCAACCGCAGAGGAGAAAACTTTTCAGAATTCCTCCTGAGG
CAGTTCAGGTACTACGCAAATCTTTTGCTGAAAGCGAGCTTCCAACCCGGGAGGTGAAAG
AGAATCTCTCAACAGAATTGGGTATTTCATTTGAAAAGATTGACAAGTGGTTCAAAAATA
CAAGGTGTGCTGCTCTCAGAGATCGGAAGGCTGAAGGAAATAGCCGTGTTGCTGGCCCCA
GCAAAAGATCGAGACGGAGTGCAGGGAAATCTGGAAGTTCAGGCAAGGTTGATTCAGTGG
ACAATTCATATCTTCTTCCCGCGTCTGAAATCATCAGTGTACCTACACATCCACAAGGGA
TTCCTGAGAGGAAGCCCGAATCAACCAGTAGAACTGTGAGGGGGCGGGTACACGATAAAG
GAGCTCCCTTGTGCCTGACCGCCAAAGTCAAGGAGAGTACATCACCTACAACCAAGCCTG
TCTTGAACACACACCCTACTCATCTAGCAGATCGCATCATCAACACTGAGCATAGAGCTG
TCTCTCAGGAGGACACAGGGCCCTCCGATGACCCTTTCTTCGATGCGATCCTATCCTATC
CCACCATCAACACAAGCGACAGAGCTGCCTCTCGGGATGATCCGGTGGCCTTCGAGGACG
ACCCTTTCCTGGACGTGATGCTAGCAAACCGCGACATCTATACCGAGGAGAGAGTCGCTT
CTCACGAGGACGTGAGGCGGACTTCCAGCGACCAGCCTTTCCTGGATGTGATCCAGAACG
TGTGCGGACTCGAGCATAGGCTGCAGAGACTGAAGGGGGACATGCTATCATCATCAGCAG
CACCAGGCGGCGCTGGAACCACAGAGCGCGACCTGCAGAGCCAACTAGTGGTTCTCGTGC
CAACCGCCGAGCTGAAGGACAAATCACAGCCTGGCATCTGAAATTCCGGGTGCGGATGCG
ACGCTCCGTTTGCGTGTTGTCGATAGGAGTTACTAAAACATATAGAAGAAATAGTGTAGA
GAAGGAGAAGAGAAAGAAAAGTAGTGGCTCTAGTCTAGGGTTCTAGCCGACAAGGGGCCT
CAACCGTGGTCGTTACTGTGTGTCACATTGAAGTGCGTCTTCGTTGTTACTTAGTATACA
AGGGCAGTTGTTACTGGTTTTAATGGGTTGGAGTTATATACTTTTCGGGGTTCAAAATGT
TTGGTTTGGAACCATGTCGATGTGCAAACTTTGAGTAACCTCAATTCTCATTTTTTTTCC
CATTTTACTAAAAAAAATCAGTTTTACCTGCAAGTGAAAATCCGTAGATTCATTTATCGA
TTTTTGGGGCGAGATTCAGTTATCGTTATTGCTACTGAGCTAGTATGATATCGCTAGGCA
ATTCATCTATTCACTCTCTCGTGCAGCT



Protein Sequence (743 aa)

>BART1_0-u43238.003 743 150831_barley_pseudomolecules
MNNSDKKSVCSIPRRSSERRKPSSSELVSSAKRPTRHNTSSSYKPDHCSPPKRTVRTVRN
VNLAKYVKNKYYRSPLSKRQASNVATGKTATGPVRRRNRKRRRHNTDCDEASRMERRASY
LLVKIKTEQNLIDAYSGDGWNGHSREKLKPDKELQRAKKQIIKCKIAIRDIIHQLDLYSS
SGSMEDSVMPPDESVNPDNTICSRCKSPESVPNNKFIFCEGPCKMAYHQKCSEPPLDKSL
PTGGPGWLCKFCLCKMKILEAVNAHLGMSLTVMCPSKDIFKEATEQMDSEDGLGEDWLSE
YSGDEDYDPEENDFTSSSLDSGEERISDQSNCSGSPLYSPNDDIPGFISADFTDAEGFYH
TNSNLGIDSGDDDAAEMLTYQRPKKEEMFGKLTDNEKQSEDEDWGTSNKRKKRRVDSAGV
GVKSAEGFSDVKSNEKVQPQRRKLFRIPPEAVQVLRKSFAESELPTREVKENLSTELGIS
FEKIDKWFKNTRCAALRDRKAEGNSRVAGPSKRSRRSAGKSGSSGKVDSVDNSYLLPASE
IISVPTHPQGIPERKPESTSRTVRGRVHDKGAPLCLTAKVKESTSPTTKPVLNTHPTHLA
DRIINTEHRAVSQEDTGPSDDPFFDAILSYPTINTSDRAASRDDPVAFEDDPFLDVMLAN
RDIYTEERVASHEDVRRTSSDQPFLDVIQNVCGLEHRLQRLKGDMLSSSAAPGGAGTTER
DLQSQLVVLVPTAELKDKSQPGI