Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u30899.010

ChromosomeExonStartStopDirection
chr4H1593062202593062084+
chr4H2593063161593063098+
chr4H3593068884593066220+
chr4H4593070516593070074+


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
morexEMB000
morexETI0.52257900
morexLEA000
morexEPI000
morexROO000
morexROO2000
morexNOD000
morexRAC000
morexINF1000
morexINF2000
morexCAR50.76278700.50745
morexCAR15000
morexLEM00.4703130.317553
morexLOD000.300976
morexPAL0.56615300
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os11g38900.1 +2 0.0 1229 648/853 (76%) protein|histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH1, putative, expressed
TAIR PP10 AT1G73100 @ ARAPORT
AT1G73100.1 @ TAIR		 +2 0.0 556 272/511 (53%) Symbols: SUVH3, SDG19 | SU(VAR)3-9 homolog 3 | chr1:27491970-27493979 FORWARD LENGTH=669
BRACH PP3 Bradi1g53840.1.p +2 0.0 1292 687/855 (80%) pacid=32801893 transcript=Bradi1g53840.1 locus=Bradi1g53840 ID=Bradi1g53840.1.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 (3291 bp)

>BART1_0-u30899.010 3291 150831_barley_pseudomolecules
CTGCCGTGGCGGCGCGGCGGCGCGATTCCTTTGCTGCTCGGCGGCAGCGGCCGACGGAAG
CAGCGGCCGGGGTAGCAGCGACGGCAAGGCTCGGTTCTCTCCTCTCCCTCCCAACCAAGG
GATTTTTCTCTCCTCGTGTGTTGTGCAGTGCTTTGTGCCAACACGTGGGACTGCAAGTGT
TGGCTTTCTCCGAAGTATGGCTTGTGGACAAGTGTAGACCTGTAGACAAAGAGACAAAGA
AATTGCTGACATAAGTCCTTATTTGAGAAAGATCAGTTGTCAGCTTACAATGGCTGGAAA
TCAGCAGCCGGCTTCAGTTGTGTTGGATTATGCAGCAGTCCTCGACGCCAAACCCTTGCG
CACACTGACCCCCATGTTCCCTGCACCGCTAGGGATGCACACTTTCACCCCTAAAAGCTC
ATCTTCAGTTGTCTGTGTCACCCCGTTTGGACCATATGCTGGAGGTACCGAACTGGGAAT
GCCTGGTGGTGTTCCGCCAATGTTAACATCACCGTCCGCTTCTGCAGATCCCAAGCAGGT
GCAGCCATATACGGTTCATATGAATGGAACTTCTAATGCTAATGGTACTACAAGCAACAC
AATGGTTACCCCTGTGTTGCAAACTCCTCCAGCAGTCACTACACAGGAGTCTGGTAAGAA
GAAGAGGGGGATGGTTACCCCTGTGTTGCAAACTCCTCCAACAGTTACTACACAGGAGTC
TGGTAAGAAGAAGAGGGGGAGGCCCAGGCGTGTGCAAGATACAACTACTGTTCCCCCGGT
TCCTCCAGTTCAACCGGTTCCTACAGTTCATTCAGTTCCTTCAGCTCCTCCAGAAGTTAA
TAATATTGTTCTCCAGACACCTACTTCAGCCGTCTCACAGGAATCTGGTAAGAGGAAGAG
GGGACGACCCAAGCGTGTGCCAGATGTTTCTGTCTTATCAACTCCAGTGCCTGTAGCAGA
TGGTACGCCTATTTTACAGACACCTCCTGCATCTAGTGTACATGAATCTGTTACAAAGAA
AAGGGGGCGGCGATCCAAGCTTGTGCAGGATATTTCAGATACTTCAACTCCCCCAGTTCA
TTCAAAAGAGAGTGAGCCCTTTATGCAGACTCCTGCAGTCACCGTATTGGAGGATGGTAA
GAGGAAGAGAGGGCGGCCGAAGCGTGTGCCTGATAGTTCAGTGACTCCTTCAAGTCATTC
TGTCCTTACAGTAGATGTTGACAGTGGTGACACATCAAAACGTGGCCGGCCTAGAAAAAT
TGACACAAGCCTATTGCACCTGCCATCTTTGTTTTCAGACGATCCCAGGGAATCCACAGA
TAATATACTTATGATGTTTGATGCACTGCGACGGCGGCTCATGCAGCTGGATGAGGTGAA
GCAAGTAGCAAAACAGCAGCAAAACTTGAAGGCTGGGAGTATCATGATGAGCGCTGAACT
TCGCCTCAGTAAGAACAAGAGGATTGGAGAGGTTCCAGGTGTTGAGGTTGGTGACATGTT
CTACTTCAGAATTGAGATGTGCCTGGTAGGGTTAAATAGTCAGAGCATGGCAGGGATAGA
TTATATGTCTGCTAAGTTTGGTAACGAGGAGGACCCCGTGGCCATTAGTATTGTGTCAGC
TGGTGTGTATGAGGATGCTGAAGATAATGATCCAGATGTTCTGGTTTACAGTGGACATGG
CATGTCTGGTAAGGATGACCAAAAGCTTGAGAGAGGTAATCTTGCACTGGAGAGAAGTTT
GCATAGGGGTAATCCCATTAGAGTCGTTCGCACTGTGAAAGACTTGACTTGTTCAACTGG
TAAGATATACATATATGATGGCCTTTACAGGATCAGAGAAGCCTGGGTAGAGAAAGGTAA
ATCTGGTTTCAATATGTTTAAACACAAGTTGCTCAGAGAACCTGGACAACCTGATGGCAT
TGCAGTGTGGAAGAAGACTGAAAAATGGAGGGAAAATCCATCCTCTAGAGATCGTGTTAT
AGTGCACGACATATCATACGGTGTGGAAAGTAAGCCTATCTGCCTTGTAAATGAGGTTGA
CGATGAGAAAGGTCCTAGCCACTTCACGTATACAACTAAACTTAACTACATGAATTCCCC
AAGCTCAATGAGAAAGATGCAAGGCTGCAAATGCACAAGCGTATGCCTACCCGGTGATAA
CAACTGTTCTTGTACGCATCGAAATGCTGGTGACCTTCCTTACAGTGCTTCGGGCATACT
TGTTAGTCGGATGCCTATGTTATATGAGTGCAATGATTCATGCACTTGTTTACATAATTG
CCGGAACCGGGTTGTACAAAAAGGTATCAAGATCCACTTTGAGGTGTTTAAAACGGGAGA
TCGAGGCTGGGGCCTGCGTAGTTGGGATCCAATCCGAGCAGGCACATTCATCTGTGAATA
TGCAGGTGTAATTGTTGACAAGAATGCTCTTGATGCAGAAGATGATTATATCTTTGAGAC
CCCTCCTTCGGAGCAGAACTTAAGATGGAACTATGCACCAGAATTACTGGGTGAACCTAG
TCTTTCTGACTTAAATGAATCATCTAAGCAGTTGCCAATAATTATTAGTGCAAAATATAC
TGGTAACATAGCTCGCTTCATGAACCACAGCTGCTCACCTAATGTTTTTTGGCAACCAGT
TCTGTATGACCATGGTGATGAGGGATATCCACACATCGCATTCTTTGCAATTAAGCATAT
TCCTCCAATGACAGAGCTTACATATGATTATGGTCAGAGCGGTAATTCAGGGTGTCGGAG
GTCTAAAAGTTGCTTATGTTGGTCTCGCAAGTGCAGGGGTTCCTTTGGCTAAATAATCAA
CCCTTAAGGGATACTTTCCTAGTTGAAGATTTGGTGTGAAGGATGGTGCTCTGTTCCTAT
GAGCAGTAGGCTCGCTGGGATTTTGGGCTTTGCCGTGTATTTTGGTCCCTGCTTGGCATA
CCGTTTTCTGCACATTACAGGTGTAAAATAAATACAGACCTCCATCCACTGGTTTAGTTT
CCAGCCGGAAGACACTCATGTCCAGTAAAATACACCTGTAAATTTTACATCCCTGTATTA
AATTACACCTATACCAAGCGCATCCTTAGCGTTTCATATATGAGAATCTGGTGGTTACCC
TATAGTCTGTCTGGACAGCATGCATGAAATTCATTCATGAAGGAATCAACCAAAGCTCTC
AAGCGACGCATATGTTCATCTAGCATTTCATATCCGAACTTGATATGATACATGAGAATA
AGGCCCAATTCTCTCAGAATCTAGGGATTCTCTCATAATCAAATCCCTTCC



Protein Sequence (840 aa)

>BART1_0-u30899.010 840 150831_barley_pseudomolecules
MAGNQQPASVVLDYAAVLDAKPLRTLTPMFPAPLGMHTFTPKSSSSVVCVTPFGPYAGGT
ELGMPGGVPPMLTSPSASADPKQVQPYTVHMNGTSNANGTTSNTMVTPVLQTPPAVTTQE
SGKKKRGMVTPVLQTPPTVTTQESGKKKRGRPRRVQDTTTVPPVPPVQPVPTVHSVPSAP
PEVNNIVLQTPTSAVSQESGKRKRGRPKRVPDVSVLSTPVPVADGTPILQTPPASSVHES
VTKKRGRRSKLVQDISDTSTPPVHSKESEPFMQTPAVTVLEDGKRKRGRPKRVPDSSVTP
SSHSVLTVDVDSGDTSKRGRPRKIDTSLLHLPSLFSDDPRESTDNILMMFDALRRRLMQL
DEVKQVAKQQQNLKAGSIMMSAELRLSKNKRIGEVPGVEVGDMFYFRIEMCLVGLNSQSM
AGIDYMSAKFGNEEDPVAISIVSAGVYEDAEDNDPDVLVYSGHGMSGKDDQKLERGNLAL
ERSLHRGNPIRVVRTVKDLTCSTGKIYIYDGLYRIREAWVEKGKSGFNMFKHKLLREPGQ
PDGIAVWKKTEKWRENPSSRDRVIVHDISYGVESKPICLVNEVDDEKGPSHFTYTTKLNY
MNSPSSMRKMQGCKCTSVCLPGDNNCSCTHRNAGDLPYSASGILVSRMPMLYECNDSCTC
LHNCRNRVVQKGIKIHFEVFKTGDRGWGLRSWDPIRAGTFICEYAGVIVDKNALDAEDDY
IFETPPSEQNLRWNYAPELLGEPSLSDLNESSKQLPIIISAKYTGNIARFMNHSCSPNVF
WQPVLYDHGDEGYPHIAFFAIKHIPPMTELTYDYGQSGNSGCRRSKSCLCWSRKCRGSFG