Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u12609.019

ChromosomeExonStartStopDirection
chr2H1560839277560838425-
chr2H2560840111560839880-
chr2H3560841176560840969-
chr2H4560841427560841263-


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
morexEMB41.81592.029198.70717
morexETI29.120131.096320.1583
morexLEA10.99777.037927.128
morexEPI28.410130.615818.8002
morexROO15.686812.3639.70412
morexROO239.170832.933829.3547
morexNOD22.610422.178857.9553
morexRAC21.310118.467318.2055
morexINF1000.0000379083
morexINF2000
morexCAR501.104070
morexCAR150.090248400.518851
morexLEM6.890324.646046.33488
morexLOD0.6711990.6498830.311992
morexPAL1.071962.018981.17234
morexSEN36.883934.737132.876



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os04g36660.1 +2 2e-112 347 207/280 (74%) protein|calmodulin binding protein, putative, expressed
TAIR PP10 AT2G18750 @ ARAPORT
AT2G18750.3 @ TAIR		 +1 1e-73 184 85/132 (64%) Symbols: | Calmodulin-binding protein | chr2:8125827-8128363 FORWARD LENGTH=622
BRACH PP3 Bradi3g46060.2.p +2 9e-140 285 176/282 (62%) pacid=32814594 transcript=Bradi3g46060.2 locus=Bradi3g46060 ID=Bradi3g46060.2.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 (1458 bp)

>BART1_0-u12609.019 1458 150831_barley_pseudomolecules
GTAGTGTACAAGAAACATTACCCTCCTGCGCTTAAGGATGATGTTTGGAGACTGGAAAAG
ATTGGAAAGGACGGTGCATTCCACGGGAAACTAAACTCAAACGGAATCTATACAGTTGAA
CATTTTCTTCAACTTCTTGTTAAAGATCAACAGAAGTTAAGAAGTATCCTTGGTACTGGC
ATGTCAAATAAGATGTGGGAAAGTCTTGTTGAACATGCAAAAACTTGTGTTCTGAGTGGC
AAACATTATATATATTACTCGAAGGATACAGCAAGTGTTGGTGCAATATTCAATAACATA
TATGAGTTCACTGGTTTGATTGCTGATGATCAGTTTATTTCAACGGAAAATCTTACTGAA
AACCAGAGGGTTAGTGTTTGCGGATACGTTGGTGAAGCAAGCATACGATGATTGGATCAA
TGTTGTAGAATATGATGGCAAGGGATTGTTGAAATTTAAGCAGAAAAAGAAATCTGTCAC
AACAAGAAGTGATGTTGCAAATGTCTCTACAAGCTACACTTCTTATGATTCAGCGCACTC
TCAGAAACAATTGGCACGAGGACATGCCAATATTGAGCGATCTCTCATGAGCAGTACGAC
TAAAGACGAGACAAGAATTGCATCCAACGGGAATCAAGTAGCAATATATGAAGCCAATCC
TCAGGACATTTCACCAAGTATTACCATGCAATATGGCATGAGTTCATTGATCCCTGAAGG
CCAGTTCAATGGCTCTTCCATCCAAACTCAAGCATCAAGAAGCTCCAACATGCTAGCATT
TGGACCTCCACCACAGCAGCCGCATAACTTCGAATTCTCAGCATTTGGTCTGTCCATGCA
ATCCCCAGCTCCTAATCCTTTTGATGACTGGCCTGGACGGTTGCAGGAGAACCGCGGTGG
TGTTGATGACTGTCTGATGGAGGAGATAAGAGGGAGAAGCCATGACATGCTGGAGAATGA
AGAAGAGATGCAACATATGCTGCGCATTCTTAGCGGCGGGGCAGCAGCAAACATGAATAA
TGTAGGTGGCTTTCCCTCCTACCCTTCTCCTGTACCGGACTTCAACTTCGTGGATGATCG
TGCTCCCTCATCCGGTAAGGCTGTTGTTGGGTGGCTTAAGATTAAGGCTGCCATGCGGTG
GGGCATCTTCGTCAGGAAGAAAGCAGCTGAGAGAAGAGCTCAGCTTGTTGAGCTGGATGA
CTAGGGGATACGGATGTTGGTAAGACACTTGTTTTTCTCGTCTTGTATAATTGCTTTGTT
GACGCAATTATAGTCAGGATCTCAAGCTCCAAAAGTATGAATGGACTCACGTTGGTTGTA
TAGGTAGCTGTTTGATGGTCATTATCTAAGTTTTGTTGGTGTTCAGAAAAACAAAACTGC
TACAACATTGGCCTCTACTGTGCAAACTTATTTGTTGGAGATTGGACACTTGAAACAGGC
TTTTTTTATGGGAACTAG



Protein Sequence (292 aa)

>BART1_0-u12609.019 292 150831_barley_pseudomolecules
MISLFQRKILLKTRGLVFADTLVKQAYDDWINVVEYDGKGLLKFKQKKKSVTTRSDVANV
STSYTSYDSAHSQKQLARGHANIERSLMSSTTKDETRIASNGNQVAIYEANPQDISPSIT
MQYGMSSLIPEGQFNGSSIQTQASRSSNMLAFGPPPQQPHNFEFSAFGLSMQSPAPNPFD
DWPGRLQENRGGVDDCLMEEIRGRSHDMLENEEEMQHMLRILSGGAAANMNNVGGFPSYP
SPVPDFNFVDDRAPSSGKAVVGWLKIKAAMRWGIFVRKKAAERRAQLVELDD