Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u13191.019

ChromosomeExonStartStopDirection
chr2H1614338934614338871+
chr2H2614339597614339485+
chr2H3614348172614348118+
chr2H4614348432614348266+
chr2H5614349221614349034+
chr2H6614350161614350013+
chr2H7614350541614350292+
chr2H8614351269614351011+
chr2H9614351485614351389+
chr2H10614354844614354764+
chr2H11614355033614354977+
chr2H12614355353614355222+
chr2H13614355517614355431+
chr2H14614355844614355736+
chr2H15614356065614355929+
chr2H16614356910614356806+
chr2H17614357771614357683+
chr2H18614357971614357869+
chr2H19614358168614358046+
chr2H20614358861614358722+
chr2H21614359582614359050+


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
morexEMB2.795122.118055.12899
morexETI1.8368703.78233
morexLEA0.0000002846423.272523.32547
morexEPI0.000000004738111.180472.36105
morexROO2.641290.3596420.764481
morexROO20.9476281.310361.05408
morexNOD3.260921.560011.02638
morexRAC0.7803821.173010.85545
morexINF105.46190.603471
morexINF21.562121.674692.78548
morexCAR50.4732732.393341.61405
morexCAR151.216680.881380.322062
morexLEM1.92671.415751.01252
morexLOD0.4560522.826861.28903
morexPAL1.122940.00000000869320.995566
morexSEN0.8181961.364482.85343



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os04g41510.1 +2 0.0 751 358/424 (84%) protein|serine/threonine-protein kinase GCN2, putative, expressed
TAIR PP10 AT3G59410 @ ARAPORT
AT3G59410.1 @ TAIR		 +2 0.0 934 476/815 (58%) Symbols: GCN2 | protein kinase family protein | chr3:21950575-21959151 FORWARD LENGTH=1241
BRACH PP3 Bradi5g14307.1.p +2 0.0 1533 738/808 (91%) pacid=32809296 transcript=Bradi5g14307.1 locus=Bradi5g14307 ID=Bradi5g14307.1.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 (3038 bp)

>BART1_0-u13191.019 3038 150831_barley_pseudomolecules
GACAATTCATCGTCTAGGCCAAACTCCCGTTATTTGAATGATTTTGAAGAGCTCCGTTCA
CTTGGGGGGCTTTGGCCGTGTGGCATTGTGTAAAAACAAGCTCGATGGACGCCAATATGC
TGTAAAGAAGATACGCCTCAAGGATAGAAGTCCTCAAGTGAATGAAAAGATTCTCAGAGA
AGTTGCCACACTTTCACGACTGCAGCATCAGCATGTTGTTCGTTACTACCAGGCATGGGT
TGAAACTGAATATGGTCAACATCATGTTGTGAACAGCGGGGGGTCACGCACTGCTGAGAG
CTCTATGTATAGTTTCGACGAGATCAGCTTATCAGATGCAGGTGCTGGAAATAAGCAGGA
ATGCACGTACTTGTACATCCAAATGGAGTATTGTCCTAGAACCCTGCGACAGGACTTTGA
GACATATAGTTCATCTTTCAATGTCGACCATGCATGGCACTTATTTCGACAAATCGTGGA
AGGCCTAGCACATGTTCATAGTCAAGGCATCATACACCGGGACTTGACACCTAGCAACAT
ATTTTTTGATGTGCGCAACGATATCAAAATTGGAGATTTTGGTCTTGCCAAATTTCTAAA
GCTGGAGCAGCTGGATCATGACCAATATATTCCTACTGAAGGAATGGGCGTTTCAATGGA
TGGAACAGGTCAAGTAGGTACCTATTTTTATACTGCACCGGAGGTAGAACAGAAGTGGCC
ACAGATAAACGAAAAGGTTGACATGTACAGTGCGGGTGTTATATTCTTTGAGCTTTGGCA
TCCATTTTCAACAGCAATGGAAAGACATCTTGTTCTCACTGATCTTAAACAGAAAGGCGA
GTCTCCAATATCATGGTCAACACAATTTCCTGGTCAATCAAATCTATTAAGACGCTTGCT
GTGTCCAAGCCCGTCCGAACGTCCATCTGCGATTGAGCTTTTGCAAAATGACTTGCCTCC
TCGGATGGAGGACGAGTGGTTAAATGATGTACTTAGAATGATACAGACACCAGAAGACAC
TTACGTTTATGATCGAGTTATATCTACAATATTTAATGAAGATCGACTGGTCGCCAAAAT
GCAATGTCAGCATGAAAGCAGTAAAAAATCCACTTATAAAAATGATAACAGTGAACTCTT
GGATTCCATTATTGAGGTTAGCAAAGAGGTTTTTAAGCGACATTGTGCTAAAAGGTTCCA
GATAACACCCTTGCATACATTGGATGGGAAATTTACTGAAAATAGTGGAAAGACAGTGAA
GATCCTAACGCAAGGAGGAGAGATGCTAGAACTTTGCTATGAGCTGCGAACACCATTTGT
TATGAACGTTGCTGCTAACCAGTTATCATCATGTAAGCGTTATGAAATATCATGGGTTCA
CAGAAGAGCAGTTGGCCATTCAACTCCTTATCGTTTTCTTCAGGGTGATTTTGACATCAT
TGGAGGTTCTTCACCAATAACACAGGCCGAAGTTATCAAGGTAGCTTTGGACCTTGTGAG
ACGTTTTTACAATTCGAAGGCAATAGTTATTCGACTGAATCATAGCAAACTCGCTGAAGC
AGTTTGTTCCTGGGCAGGAGTTCCTCAGGAACGAAGACAGAATGTTGCTGAGTTTCTATC
TTCTACTCTTGTTCAATATTGCCCAAACAAGGCGGATCGTAAGTCACAGTGGAGTTTCAT
TCGAGGGCAACTATTACAGGATCTTCGTCTTTCTGAAGAAGTTGTTGAAAAGCTACATAA
AGCAGATCAGCGGTTTTGTGGATCTGCAGATCTAGTACTTGCTAGATTAAGAGGGACCTT
TTTCTATGATAAATCTGCTTGCAAGGCTCTTGATGATCTCTCCACATTCCTTAAATGTTT
GAGGGTATGGTCAGTTGAAGAACATATTGCTATTGATGTACTTATGCCTCCTTCAGACTA
TTACTACTCAGATATGTTTTTTCAGATCTACTCAAAAGAAGGCAGTCCTGCGTCGAGTTC
CCATGAAAAGTTGCTTGCTGTTGGCGGGCGATATGATATGTTGATGGAAAATGCTTGGGA
TAAGACACATAAAACCAAACCCCCGGGTGCTGTTGGTGTGAGCATTGCACTTGAGAAATT
CCTACCTAATAATCCTTCATCTGACGTTGGGTTGCCAAGGATTGAAAATAGCATCAGTGT
ACTAGTCTGTTCAAAGGGCGGCGGCGGACTCTTAAACGAACGCATGGAACTTGTTGCAGA
ACTTTGGGAAGCTAACATAAAGGCCCAGTTTGTTCCTCAGGAAGACCCAAGTCTTCAAGA
ACAATACGAGTACGCCAGTGATCATGACATCAAATGCCTTGTGTTTATCACTGAAGCAGG
TCTTGCGCAAACTGATCTTGTGAAGGTTAGACATCTCGATGCAAGAAAGGAGAAAGATGT
TGAAAAGGAAGAAATTGTGAAGTTCCTGTCTGAAGCAATATCTTTACAGTTCAAAAATCC
TACAATCTGGAGCTGATTGGCAGTCTGCTCCTAAGTGAATTTCAGGTGAAAGCAGTGTTG
CCTTGCCAAACATTTTCACCTACACCAAATTGCAGGGTGACTGGTGGCTTTGTTCAATCT
TGGTTATCCTGGAGCATTGGCCAAGATTGATGGCTTGGTGTAATCCTGATTGTCCTGGAG
CAGTATTGCGGTGAATGCAAGCTGACGGGTAGCTGTTTTAAGGCAATCTTGGCTGCTATT
ATGTGGATAGCTAGTTGGTGCAGAGTTACTTCTGCGATGTGATCATGGAGCTGGAATGCT
GCACAACGTTCTTGTTGATAGTGGAACGGCTGTGCTACAGGTTCACCCAGTTATGCCCTT
TGCAAAAAAATTTGCTTCAAATTCTTCTACAAGGCAGTCTTTTGCATAGTTCAAATTGTT
TACGATCATGTACAGGCCAATTTTCCTTCTTTGATGCTCGTAGGAAATGCCCAGTTTTGC
AACTGGCTTAGCTTGGAGAAGACAAGCCAATGCAGTTTTGCTACAATACCGGTCAAAGTA
GAATGTATGTAATCTGTTATCTGTGCACAGTGCGAAAG



Protein Sequence (812 aa)

>BART1_0-u13191.019 812 150831_barley_pseudomolecules
MILKSSVHLGGFGRVALCKNKLDGRQYAVKKIRLKDRSPQVNEKILREVATLSRLQHQHV
VRYYQAWVETEYGQHHVVNSGGSRTAESSMYSFDEISLSDAGAGNKQECTYLYIQMEYCP
RTLRQDFETYSSSFNVDHAWHLFRQIVEGLAHVHSQGIIHRDLTPSNIFFDVRNDIKIGD
FGLAKFLKLEQLDHDQYIPTEGMGVSMDGTGQVGTYFYTAPEVEQKWPQINEKVDMYSAG
VIFFELWHPFSTAMERHLVLTDLKQKGESPISWSTQFPGQSNLLRRLLCPSPSERPSAIE
LLQNDLPPRMEDEWLNDVLRMIQTPEDTYVYDRVISTIFNEDRLVAKMQCQHESSKKSTY
KNDNSELLDSIIEVSKEVFKRHCAKRFQITPLHTLDGKFTENSGKTVKILTQGGEMLELC
YELRTPFVMNVAANQLSSCKRYEISWVHRRAVGHSTPYRFLQGDFDIIGGSSPITQAEVI
KVALDLVRRFYNSKAIVIRLNHSKLAEAVCSWAGVPQERRQNVAEFLSSTLVQYCPNKAD
RKSQWSFIRGQLLQDLRLSEEVVEKLHKADQRFCGSADLVLARLRGTFFYDKSACKALDD
LSTFLKCLRVWSVEEHIAIDVLMPPSDYYYSDMFFQIYSKEGSPASSSHEKLLAVGGRYD
MLMENAWDKTHKTKPPGAVGVSIALEKFLPNNPSSDVGLPRIENSISVLVCSKGGGGLLN
ERMELVAELWEANIKAQFVPQEDPSLQEQYEYASDHDIKCLVFITEAGLAQTDLVKVRHL
DARKEKDVEKEEIVKFLSEAISLQFKNPTIWS