Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u11397.009

ChromosomeExonStartStopDirection
chr2H1405593990405593791+
chr2H2405594558405594075+
chr2H3405594729405594650+
chr2H4405594910405594845+
chr2H5405597762405595025+


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
morexEMB0.1657540.6222560.114103
morexETI3.218073.066553.51861
morexLEA1.738637.127434.97214
morexEPI3.839185.333453.00746
morexROO0.2074710.3834390.0632797
morexROO20.2368940.0903470.140608
morexNOD0.3253390.6221750.369425
morexRAC0.3556220.1880890.167736
morexINF10.079760.3738230.372247
morexINF20.2952240.5052490.239161
morexCAR51.508590.8149421.3501
morexCAR150.7806741.085241.49165
morexLEM0.04117620.04910570
morexLOD0.04747210.03197620.0990361
morexPAL0.1840230.1212310
morexSEN6.113498.486029.06084



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g05010.1 +3 4e-39 152 104/217 (48%) protein|helix-loop-helix DNA-binding domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g58230.1.p +1 9e-60 211 136/227 (60%) pacid=32794195 transcript=Bradi1g58230.1 locus=Bradi1g58230 ID=Bradi1g58230.1.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 (3568 bp)

>BART1_0-u11397.009 3568 150831_barley_pseudomolecules
CAACTCTTCTCTCCTCTTCTCTTCTCTCGTCCTTTTATTATTCCCGAGAAAATCGAACCC
AGCTAGACAGTCCACAGCTCTGGCACACAGCTTCGCTCTCCGCCGGTTTCTGCTCAAGTG
GAGAGGCCCGTCAGCTCGATCGGTTCCAGGATCATGGACGACGGCGCAACACCGCCGCCC
AACCACAAGAGGCACCTCCCACTGCGGGAGGCGGGCGGCGACCTCGTGGAGCTGCTGTGG
CAGAACGGAGCCATCGTAGCGCAGGCGCAGGCGCAGACGCCGCACCGCCGGTGTTCCCAG
AGCGGCGCGGCGAGCGGCGTCACCGCGGAGGACGCGACCGCGTGGTTGATCCCGGACGGC
GGCGGCGGCAGGGACCTGTACTCGCACCTCTGGCACGGCGTCGCCGACGGGGATGCGGGC
GCGCTCGTGGCGGGGAGCGGCGGCGCCGGGACGAGCTTCTGCGGGAGCAACGCGGTGACG
GCGCCGGCGCTGCTGCCATCGCCGGGCTCGTCCGCAGCGGGAGGCCAAGCGCTACTGTTC
AAGAGGGGGAGGGACCAACTGGATAGCCGCCGAGAGGACGAACTGGATACCGACGACTGT
GAGGCCGTCAATGAGACCCGGCCGCAGCGGCCGGCAGCGAAGCGCAGGACTCGTGCTGCC
GAGGTCCATAACCAATCAGAGCGGAGAAGAAGGGATCGGATCAACGAAAAGATGAAAGCA
TTGCAAGAACTCGTACCCCATTGCAACAAGGTACCAAAGAAACTAGCGACAAGGCGTCCA
TTCTAGACGAAGCAATCGAGTACTTGAAGTCTCTGCAACTGCAAGTTCAGATCATGTGGA
TGACTACTGGGATGACGCCCATGATGTACCCTGGTGCTCACCAACTCATGTCGCCGATGG
CCGTGGGCTTGAACTCAGCGTGCATTCCCACGGCGCAGAGCCTTAGCCAGCTGCAAAAAA
GGGTAGCACCGTTTATGAACAATCATCTCCCCGATCAAATGCCTCAGGTCCAATCTCCAG
CTATCGATTCCCTCGATGTGGCAAACCAGATGCAAAACAATGGTGTCTGTGGTGAGCCAA
GAAACCCTTTCCTGCATCCAGACGACACGCTAACAGCGGCATCTCAGGTTATTACGACAC
AGTTGATCTCCTCCTGATCTATCAGACTTTTACTCCTGTTAGCTTACGCTGTCGATTCCT
CACAGCTTCCGGGTATGTTGCCCTATGCATCTCAAAAGGCACAACAAAACCAGAATCATC
AGTTACTGCCTAGCATAGACATGCCAGCTTCAGGACCCTGCCCGCCATCTTTTGCTGACG
GAACGGGAAAATAAGGCCAGGCAGTTTCAAGCAAGATGATTTACTGGTCAGTGTAAAGTT
ATTTTTCTTATCTTATTTTCACGTAATAAATTTTGTTACCGATGAACTAAAACTTCAATA
GACATGTATATATCAGTAGATGAATCTCCCAGCAATACAAAGTTTGCTATCAGTAAACTG
AAACTCCAATTTCCTGCAAAACAAACGTCGTGCTTTTAGTTCAAATTTGATTTTGGGACG
GAGGGAGTACATGCTATCATTATTTCCTGCGCTTAAGCGTAGCCACTTAGTGTGGAAGCT
ACCAAATTGCGGTCGCCGGATGGATCGGTTCTTGATATTTTGTTCCCCTTTGGCACCTTC
CGGGTCCTGTCCAATCAGTAGATTAACTCTGATCGTGGCGGTTGTGCATCCGTTTCACTC
TTTCGCTGCTACATTCAATAGACTTTTTTGTCAGATTAGAAAAACAAGCCCCACTAGCTC
ACAAGCAATTGGGTTGAGCATCGCTCTCTTGATGCAGACAGGACAAGGAATGCAACAATT
ACTTGCATGAGATCAGCAACGAGTGAAAATACTACTAGTAATAGCCAGATCAGATCCTTG
ATGCTATCCCAACAAGCAATTTATGCATAGTGTTATTGCCCAGAATTATCGTCATTGAGA
CAGGATCATTGGGCCGATGTAGAGGCTAATGATATACGGTACTAGTTTCAGATAACCCAG
GACCAATAGAACCTTATATACTAATCAAGTTCTTTGGTTTAGTATATCTTCATGTGGAGG
CTTATGATATACTCCTGTTTCAAATTAGTTGAAGTTCTATGTTTGTCCTAAGTAAAAACG
TCTTTAAGTTTTACCAAGTTTATAGAACAAATAAATCAACGCCAAATTAGTATCAGTATA
ATCTATATAAAATATATTTTATTTGATTTTGTAGATCTTAGCAGATTTTTCCATAGGACA
ACCCTAGAACTTCAATTAATTTGGAACGGAGGGAATACTAGTTCGCATAACCCAGGGCGT
CTATGGCCTTGTATACTAATCAAGCTCTATACTTTATTTTTTAGATTGGCCATCTATCTA
TATGATAATATAAGATGCCAAGGAAACTCAGACATGTCCTTCACATCCCTAACGAACGGC
CAGAATATCACCTGGCATATATAACTCGCAGGTATTCCCAGGAAGCAATAAAATACTGAT
TACGATGCTAAGTTTAACACTTTCTTTAACTTATCATCTTTGACATGTTGCTGAAATTTT
TGTGTAATGACCAACCAGGGGGGTTGGATACAGGAGGTCAGAGCAAACTAGTCATAGAAG
AGAAGAGATATGGTACCAAGACACTCTGTGCTGTAAGGCCAGGGGCAGATCATGCAACAT
TGAGCCTTGGTGGCACCACTAAGCAACCAACACGTATGGGCCCGAGATCATGCGGAATTG
CGGATAGCAGATACTATTCTTATCCGAAGAATAGTCTTGAGCACCACCTTTCTATTTATG
GAAGGATTTGGTCCATGGGAGATGAACTTGGGGCTTTGACAGGGACAACAAAAGATGATT
GTGCCGATATGCTGCAGATCTGGAGATGACATTGTTGGAGCCAGGATCTGCACAATGACA
CAACTTGTGCACTTCTGCTCGTCTTTCCACCGATGTAACTCCACTCCACTGGTGAGTCCT
AATGGGACTGTCCTGTTGACCCGCGGTCGAGCTATCGATATTCGAATGGACGGCTGAAAC
AAGGGTAGGCAGAAGAAACTTGTGCTTTTCGGACACAATTGTAGATCAGGTTTGCATATG
CCTTTCAGAAATTCAGACAAGTGGTACATGAAGATCATTCTCATTCGGCCATCAGGATCG
CGAGATTATCGCCTTACCCTTAACCCTGGAAAGATTGTACCGCATGTGGTGATGTCCTGT
TACAAGTTAATCAGGACTGTGATGGGCATCATCCGTTTCGTCACAGGGTAATTAGTCTCT
GAAAATATCAATGATGCTGCATCTTTTGTTGTGTTATACTCCAATTGTGAGTCAGCTTCA
GTCGCCGTCAGGGGAGACTGGGACTTTGCTTCGCATTTACACGTCCAGATTTGGTTGTCA
TGCTCGTATCATAGCGATTGATGTAGATGCTTGGCAATTTGGAGGACAGATATTCATACC
ATGAAAAAAAAGAGGACAGATATTCATTCTTTGCGTCTTGCTCTTGCTTCTATATATATC
TAGGAAACCAGAACTAGTCAAAATTTCA



Protein Sequence (210 aa)

>BART1_0-u11397.009 210 150831_barley_pseudomolecules
MDDGATPPPNHKRHLPLREAGGDLVELLWQNGAIVAQAQAQTPHRRCSQSGAASGVTAED
ATAWLIPDGGGGRDLYSHLWHGVADGDAGALVAGSGGAGTSFCGSNAVTAPALLPSPGSS
AAGGQALLFKRGRDQLDSRREDELDTDDCEAVNETRPQRPAAKRRTRAAEVHNQSERRRR
DRINEKMKALQELVPHCNKVPKKLATRRPF