Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u23592.009

ChromosomeExonStartStopDirection
chr3H1627472849627472815+
chr3H2627476335627476197+
chr3H3627476767627476548+
chr3H4627476952627476852+
chr3H5627477223627477102+
chr3H6627477389627477298+
chr3H7627478018627477913+
chr3H8627478253627478099+
chr3H9627479059627478932+
chr3H10627480848627479216+
chr3H11627481767627481243+


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
morexEMB00.9198921.23831
morexETI1.694210.9265361.55019
morexLEA2.392770.980121.24139
morexEPI0.5686071.44352.17691
morexROO00.1661760.424921
morexROO20.6210660.7327580.343207
morexNOD1.155991.053851.16388
morexRAC1.775151.36491.98507
morexINF10.8350381.969871.14965
morexINF22.022053.22460.384594
morexCAR51.188432.125112.41423
morexCAR153.885141.45293.37032
morexLEM1.559210.8097330.81861
morexLOD1.871270.4554121.05989
morexPAL0.4675910.9652130.962929
morexSEN0.234620.1772170



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os01g67420.1 +3 0.0 628 303/404 (75%) protein|lipase, putative, expressed
TAIR PP10 AT1G05790 @ ARAPORT
AT1G05790.1 @ TAIR		 +3 2e-124 397 201/404 (50%) Symbols: | lipase class 3 family protein | chr1:1733039-1737365 FORWARD LENGTH=687
BRACH PP3 Bradi2g57770.2.p +3 0.0 741 348/405 (86%) pacid=32774683 transcript=Bradi2g57770.2 locus=Bradi2g57770 ID=Bradi2g57770.2.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 (3256 bp)

>BART1_0-u23592.009 3256 150831_barley_pseudomolecules
TCGACAGCGACCGCGACCTCCGGCATCTCTCGCGGCTACGATACAATAGATGGCTTTGGT
GGGCAAGGTTTGGGATGGTAATTACAGTGCTCCAATTTGTGCTGGCACTTTATTTGATGT
GCATTATTGTAAAGGATTTCTCATCTGGGAAGTCGTTGAAAGAGTGTTTTTCAGGACACG
GCAAGGACAACAATGACTGGAAGAATATCTTGTTAATAATTTTTCTTGTTCTTATGTGGG
TGGGAACAATAGTCCAGTGTGCCACAGGTTCCGATGTATTAAGATGGAGGTCCTTTTATG
CAACTCATGATATAGCATGGAGGGCTCACTACAGGGAGGTGTTTGATCATGGCATTCGTG
AGGTTTTATGTTGTCTAGGACGGGTGAAGTACTCGAGTGTACTGGAAGATGATGATATAT
GTGTCGTGGCAAAACTGTTGGGCGATATTATGGCTTATCGTGCATCTGGAACTGGCCATC
TTGAGCTCATAGCAGGGTTTTCATTGTTGCAGAAATCCAAGATGTCGACGGTTGTTTCAA
GAGAACAAGCAGAGGCTCCTCATGATCTCATCCAAGAGGCTATTCTGTTTCATCCATTTG
CTGAAGCTGCATATACAGGTCCGTTACTTGATTTTGGAAGGAATCCTCTTATGTTTCCCT
GTGTTTGGCTCAATAGGCAAGGTATTTTAACTCCATGGACTCGTGCTAGACGACCAATCC
TTGAAGGAGATAATTGGTGGAGAGGGCATGCAGCGGCTTTCCTAAAGTATGTCAATGTGC
CCCCAGAAGTTCTTCGGAAAGGGCGTGTTAGCCAGACAAAACGTGAGGCTGCCTACTTTA
TTATTGTCTTACATGACTTGAAAACAGTAGTCATTGCCATTCGTGGAACCGAGACTCCAG
AAGATGTTATAACCGATGGCTTATGTAGGGAATGCTCTCTTACGATGGATGACTTGGATG
GGCTGGTCAATTCTGATCAGTTACCCCCTCAAGTGAAGGAGGCTGTGCTCTCGTCTTTTC
CACACTATGGACATGCGGGAATTATTGAATCAGCTCGAGAATTGTACACAAAGCTTGAAG
GGCAGCCCATTCATCAAGCTAGTATGGAACTGCCTGCAGATAAGTCAGAGCTGATGACAG
CTGGGTTCTTATCTTCGCTGCTCGGAGCTGGATGTGAGTGTGATGGATACAATATTGAAA
TTGTTGGACATTCTTTAGGAGGTGCTGTAGCTGCACTTCTTGGTATTAGGGTAAGTTAGC
TATTTTATATTTGCATGGGATTTACTTCATGCATTTTTTTTTACAGTGATTTACTTCATG
CATTTAATTATGTTGATTTGTTATTCAGTTATAAGCTTGATTGGTTATTATTTTGTTTTT
AGAAAAAAAATTGCGTCTTGGTGCACTAATAGAAAAGGCTGTAATGTACAAACCTAAGAC
TAGGCCAAAAACCCAGACCACACGCACGAGACTGTGCTCCTGGTTATTGCATTGTTCGCT
GCGTCTTGTGCAACCCAGCCGCACTAGACGAAGCCCACATACGCGCATCTGACTCAATCC
TTGCCATGAGCAGCTGCACATCAGACCTTCCGCTGAACTATTTTGGGTATCTCACTTTTC
GCAAATGTGGGCACTTGCCCATGAGGCACCATATCATTTCACTTCTATGTTCTTGCAATC
GTTAACTGTTGAGTTCTATTGACATATTCATGTGTGACAATTAACCTGTGTTATAATATG
CAGCTATATAAACAGTTTCCAAAATTACATGTCTTTACTTATGGAGCTGCACCCTGTGTA
GATTTCGTGATAGCAGATGCATGCTCACAGTTTGTTACCAGGTGAACTTCAAATTTCTGT
ACTAGTGAACTTATTGTCCGTATTTTTTTTTATTACTGGCAAGTGGCAACAGCATGTGAT
TTTCTGATAAGTTATCTGTTGCTTGCAGCATTGTCCACAACGATGAATTTTCCTCAAGAT
TATCCATGAATTCGGTAATTAGATTACGTGGCGCTGCTATCAAAGCTCTATCAAAGGATA
CTTCGCCAAATTCTACTAAAGTTGGCAAACTAGTGAGTGGCTTCACGAGCATCAAAGGGC
ATGATGAACAATGCGATGTGGTTCAATTTGCTGCTCCTGGTGCTCTTCAGACAGTCAGCG
ATGCAAAGCTAAGTAACGGTCAAATCTATGGAAAGAGTGTAATGCATACAGTTAGAGGTG
GTGTGTTCCTCTTTGGTCAAGCAATATCTTGCTTGGTAAATACTCCAAAGCATAGAATTA
GCTCCACTGCGGCAATTAAGTACGAGTTGGGGCGATCTAGAACAACGTTAACCTATAATG
GAGAAAAATTGACTGTTGCTTCCCATGGTGTTCTGGATGGTGCACCTTCTGGAGAACCTA
GCGATGCATACCGAGATGGCAAGTTTCCAGAAGCTGGCTTGGATGAATCCGGAAGTAGTT
ACAGGTTACCTCATTCAAATGATGGTACTGAGCTCTCACCTGCTCCTGATCACATCTGTA
CAACAAGTTTATCTGAAGGGCAGTCGCCAGAGGTGTACCTCCCTGGCCTCATTATTCATA
TCGTTCCCATAAAAAATGGTACCTCTCCATCACGGAAGACACTTGTGACTCGTCACAAGA
ACAAGAGTTATAAAGCATTTGTAGCAAATCGGCAGGACTTTATGGACCTTGTTGTGACCC
CTCGCATGTTCCTTGATCATCTCCCATGGAGGTGCCACTATGGCATGCAAAGGGTTATAG
AAAGACGGAACCGGAACCAGCCCATTCGCAATTCATCCACCGGAGAGGATTCTGTCTAAC
TGAAAACTGTTAGGCTGGTACAAATGTATCATTATTCAGCTTGACCTCTTCCTTGTTTCT
TCTGTACATATACAAGTTATGGAGATATGATCATGTGCTCTTCACATACTTAATTTAGGA
AGGTGTAGAAGAAGCAAGGGCCGAAACGAGCCTTGAGTGCATCCTGATGAGCATTACTTG
ACCTCACCATTGTTGTATTCAGCTTTCCTGGTAGCTAGGGCAGCTCTTATATATACACCA
TCGGTCAACGAAGACCGGCTTCTTTGTTTTATGACAAGCTTGTACTACTAAATTAAATCC
TCTGGTGTCAAACTTTTGCTTCGAGCAGTGTTGTAACTTTGACACCAGCACATGTAAGTT
AACGCTGTAAAATCCGAACTGCCATGAATTCATGGATAGAAAACAATATACAAGCTACTG
TTTTATTAGCTCCGAC



Protein Sequence (418 aa)

>BART1_0-u23592.009 418 150831_barley_pseudomolecules
DSDRDLRHLSRLRYNRWLWWARFGMVITVLQFVLALYLMCIIVKDFSSGKSLKECFSGHG
KDNNDWKNILLIIFLVLMWVGTIVQCATGSDVLRWRSFYATHDIAWRAHYREVFDHGIRE
VLCCLGRVKYSSVLEDDDICVVAKLLGDIMAYRASGTGHLELIAGFSLLQKSKMSTVVSR
EQAEAPHDLIQEAILFHPFAEAAYTGPLLDFGRNPLMFPCVWLNRQGILTPWTRARRPIL
EGDNWWRGHAAAFLKYVNVPPEVLRKGRVSQTKREAAYFIIVLHDLKTVVIAIRGTETPE
DVITDGLCRECSLTMDDLDGLVNSDQLPPQVKEAVLSSFPHYGHAGIIESARELYTKLEG
QPIHQASMELPADKSELMTAGFLSSLLGAGCECDGYNIEIVGHSLGGAVAALLGIRVS