Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u43238.002

ChromosomeExonStartStopDirection
chr6H16421527064214315-
chr6H26421564664215404-
chr6H36421657364216523-
chr6H46421755264217463-
chr6H56421922764219027-
chr6H66421973764219387-
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
morexEMB0.8652831.970162.13698
morexETI1.450060.004030762.57491
morexLEA1.387621.21912.03646
morexEPI0.00000001200814.656412.68422
morexROO0.01630681.674381.62755
morexROO23.575044.048713.0499
morexNOD3.01080.001756949.63592
morexRAC5.118572.137797.33289
morexINF15.4864.219427.3126
morexINF25.587097.411624.43012
morexCAR510.85741.195964.99273
morexCAR151.043573.583983.76012
morexLEM0.0001461292.628243.70194
morexLOD2.449924.580652.67217
morexPAL4.653164.628842.60692
morexSEN2.575924.088434.40819



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g05450.1 +3 0.0 731 450/750 (60%) protein|Homeobox domain containing protein, expressed
TAIR PP10 AT4G29940 @ ARAPORT
AT4G29940.2 @ TAIR		 +3 1e-72 255 164/430 (38%) Symbols: PRHA | pathogenesis related homeodomain protein A | chr4:14648346-14652710 REVERSE LENGTH=769
BRACH PP3 Bradi3g03747.3.p +3 0.0 1026 560/750 (75%) 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 (2872 bp)

>BART1_0-u43238.002 2872 150831_barley_pseudomolecules
NNNNNNNNNNGCCCCCGCCGGCTTCCAATTGGAGGAATTCGGATCTCCTCCCCCTCCTCC
TCCTCCTCTGCTGGGCTTGCTTGGAGCGGAGATCCACCGGGGCCTCAGCTCTCGGACTCA
GTCGGATGTGATACTATCAAGTTCTGACAATGAATAATTCAGACAAGAAGTCGGTATGCT
CCATTCCTAGAAGATCATCAGAACGTAGGAAACCGTCCTCTTCTGAGTTGGTTTCTTCAG
CAAAAAGGCCAACTCGCCACAACACCTCCAGCAGTTATAAGCCAGATCATTGTTCTCCTC
CCAAGAGAACAGTAAGAACAGTCAGGAATGTTAATCTGGCAAAATATGTAAAGAACAAGT
ATTATCGTAGTCCTCTGAGCAAGCGGCAGGCTTCAAATGTTGCTACTGGAAAAACTGCAA
CAGGACCAGTCAGGAGGAGGAACCGGAAACGGAGAAGGCACAACACTGATTGTGACGAGG
CAAGTCGCATGGAAAGAAGGGCGAGCTATTTGCTGGTCAAAATAAAAACGGAGCAGAATT
TAATAGATGCATACTCTGGAGATGGCTGGAATGGGCACAGCCGAGAGAAATTAAAGCCAG
ATAAGGAGCTACAGCGTGCTAAGAAACAGATCATTAAATGCAAAATTGCTATCCGTGATA
TTATCCATCAACTTGATTTGTATAGTTCAAGTGGGAGCATGGAAGATTCCGTGATGCCTC
CAGATGAGTCTGTTAACCCTGATAATACCATATGTTCAAGATGCAAATCTCCTGAATCAG
TTCCCAACAATAAATTTATCTTCTGTGAAGGGCCCTGCAAAATGGCGTACCATCAGAAAT
GTTCAGAACCTCCTCTAGACAAAAGTCTTCCTACTGGTGGTCCTGGATGGCTTTGTAAAT
TCTGTTTGTGCAAGATGAAAATTTTAGAAGCTGTTAATGCACATTTGGGAATGAGCCTTA
CAGTGATGTGTCCCTCTAAAGATATTTTTAAGGAAGCAACTGAACAGATGGACTCTGAGG
ATGGACTAGGAGAGGATTGGTTATCTGAGTATTCAGGTGATGAGGACTATGACCCTGAAG
AAAATGACTTCACAAGCAGCAGCCTGGATAGTGGTGAAGAAAGGATATCTGATCAGTCCA
ATTGTTCAGGAAGTCCGCTTTATTCTCCAAACGATGATATTCCAGGCTTTATATCAGCAG
ATTTCACTGATGCGGAAGGATTCTACCACACCAATTCAAATTTAGGAATTGATTCTGGGG
ATGATGATGCTGCCGAGATGCTTACCTACCAAAGGCCAAAGAAAGAGGTTGATTATAAAA
GACTTAATGAGGAAATGTTTGGAAAGCTGACTGACAATGAAAAGCAGAGTGAAGATGAAG
ATTGGGGTACTAGTAATAAGAGAAAGAAAAGAAGAGTGGATTCAGCTGGTGTTGGAGTTA
AGTCTGCCGAGGGTTTCTCAGATGTAAAATCAAATGAGAAAGTCCAACCGCAGAGGAGAA
AACTTTTCAGAATTCCTCCTGAGGCAGTTCAGGTACTACGCAAATCTTTTGCTGAAAGCG
AGCTTCCAACCCGGGAGGTGAAAGAGAATCTCTCAACAGAATTGGGTATTTCATTTGAAA
AGATTGACAAGTGGTTCAAAAATACAAGGTGTGCTGCTCTCAGAGATCGGAAGGCTGAAG
GAAATAGCCGTGTTGCTGGCCCCAGCAAAAGATCGAGACGGAGTGCAGGGAAATCTGGAA
GTTCAGGCAAGGTTGATTCAGTGGACAATTCATATCTTCTTCCCGCGTCTGAAATCATCA
GTGTACCTACACATCCACAAGGGATTCCTGAGAGGAAGCCCGAATCAACCAGTAGAACTG
TGAGGGGGCGGGTACACGATAAAGGAGCTCCCTTGTGCCTGACCGCCAAAGTCAAGGAGA
GTACATCACCTACAACCAAGCCTGTCTTGAACACACACCCTACTCATCTAGCAGATCGCA
TCATCAACACTGAGCATAGAGCTGTCTCTCAGGAGGACACAGGGCCCTCCGATGACCCTT
TCTTCGATGCGATCCTATCCTATCCCACCATCAACACAAGCGACAGAGCTGCCTCTCGGG
ATGATCCGGTGGCCTTCGAGGACGACCCTTTCCTGGACGTGATGCTAGCAAACCGCGACA
TCTATACCGAGGAGAGAGTCGCTTCTCACGAGGACGTGAGGCGGACTTCCAGCGACCAGC
CTTTCCTGGATGTGATCCAGAACGTGTGCGGACTCGAGCATAGGCTGCAGAGACTGAAGG
GGGACATGCTATCATCATCAGCAGCACCAGGCGGCGCTGGAACCACAGAGCGCGACCTGC
AGAGCCAACTAGTGGTTCTCGTGCCAACCGCCGAGCTGAAGGACAAATCACAGCCTGGCA
TCTGAAATTCCGGGTGCGGATGCGACGCTCCGTTTGCGTGTTGTCGATAGGAGTTACTAA
AACATATAGAAGAAATAGTGTAGAGAAGGAGAAGAGAAAGAAAAGTAGTGGCTCTAGTCT
AGGGTTCTAGCCGACAAGGGGCCTCAACCGTGGTCGTTACTGTGTGTCACATTGAAGTGC
GTCTTCGTTGTTACTTAGTATACAAGGGCAGTTGTTACTGGTTTTAATGGGTTGGAGTTA
TATACTTTTCGGGGTTCAAAATGTTTGGTTTGGAACCATGTCGATGTGCAAACTTTGAGT
AACCTCAATTCTCATTTTTTTTCCCATTTTACTAAAAAAAATCAGTTTTACCTGCAAGTG
AAAATCCGTAGATTCATTTATCGATTTTTGGGGCGAGATTCAGTTATCGTTATTGCTACT
GAGCTAGTATGATATCGCTAGGCAATTCATCTATTCACTCTCTCGTGCAGCT



Protein Sequence (751 aa)

>BART1_0-u43238.002 751 150831_barley_pseudomolecules
MNNSDKKSVCSIPRRSSERRKPSSSELVSSAKRPTRHNTSSSYKPDHCSPPKRTVRTVRN
VNLAKYVKNKYYRSPLSKRQASNVATGKTATGPVRRRNRKRRRHNTDCDEASRMERRASY
LLVKIKTEQNLIDAYSGDGWNGHSREKLKPDKELQRAKKQIIKCKIAIRDIIHQLDLYSS
SGSMEDSVMPPDESVNPDNTICSRCKSPESVPNNKFIFCEGPCKMAYHQKCSEPPLDKSL
PTGGPGWLCKFCLCKMKILEAVNAHLGMSLTVMCPSKDIFKEATEQMDSEDGLGEDWLSE
YSGDEDYDPEENDFTSSSLDSGEERISDQSNCSGSPLYSPNDDIPGFISADFTDAEGFYH
TNSNLGIDSGDDDAAEMLTYQRPKKEVDYKRLNEEMFGKLTDNEKQSEDEDWGTSNKRKK
RRVDSAGVGVKSAEGFSDVKSNEKVQPQRRKLFRIPPEAVQVLRKSFAESELPTREVKEN
LSTELGISFEKIDKWFKNTRCAALRDRKAEGNSRVAGPSKRSRRSAGKSGSSGKVDSVDN
SYLLPASEIISVPTHPQGIPERKPESTSRTVRGRVHDKGAPLCLTAKVKESTSPTTKPVL
NTHPTHLADRIINTEHRAVSQEDTGPSDDPFFDAILSYPTINTSDRAASRDDPVAFEDDP
FLDVMLANRDIYTEERVASHEDVRRTSSDQPFLDVIQNVCGLEHRLQRLKGDMLSSSAAP
GGAGTTERDLQSQLVVLVPTAELKDKSQPGI