Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u18690.007

ChromosomeExonStartStopDirection
chr3H16742317167421727-
chr3H26742539867425189-
chr3H36742568067425530-
chr3H46742599167425751-
chr3H56742625967426201-
chr3H66742695067426694-
chr3H76742718967427047-
chr3H86742733267427278-
chr3H96742750667427429-
chr3H106742770567427601-
chr3H116743003167429767-


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
morexEMB9.365950.7250061.36634
morexETI13.579224.858821.0773
morexLEA2.456042.555074.57688
morexEPI59.037873.010655.9386
morexROO11.8423.819820.631132
morexROO211.749420.354127.295
morexNOD3.5812521.40167.54349
morexRAC42.374439.316125.164
morexINF12.909352.213424.39471
morexINF21.847612.325891.85658
morexCAR53.753171.475823.17299
morexCAR152.869941.646754.27339
morexLEM35.373520.365523.6845
morexLOD39.842943.763337.1661
morexPAL20.777622.499727.213
morexSEN33.713461.572140.9851



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os01g08700.6 +2 0.0 1566 807/912 (88%) protein|GIGANTEA, putative, expressed
TAIR PP10 AT1G22770 @ ARAPORT
AT1G22770.1 @ TAIR		 +2 0.0 1144 624/929 (67%) Symbols: GI, FB | gigantea protein (GI) | chr1:8062398-8067447 FORWARD LENGTH=1173
BRACH PP3 Bradi2g05226.1.p +2 0.0 1642 846/906 (93%) pacid=32776210 transcript=Bradi2g05226.1 locus=Bradi2g05226 ID=Bradi2g05226.1.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 (3009 bp)

>BART1_0-u18690.007 3009 150831_barley_pseudomolecules
AGTCACGCAGCGCACCGCGCGGGCTCCACCCCTCGCCCCGCGAGGCGAGTGAAATAACGG
AGCCAACGCTACACAGACCACCGCCTACCCCTCCCATTACGGAAAAAATCTTTTTCTCGC
CTCTCCTCGCCCCTCACATTTTTCTCTCTCCTCCTCCTCCTCCTCTCTGCCTTCGCCTCT
GCCTCAGCCTCGCCCGCCGCGCAATCCCGTCGCCGGCGCCGCCGATTCGCCGCCCGAGCT
CCGTATTGGGGCGCTCCCGACCGAGGCTCTTAAACTACCAAGTATGTCAGCGTCAAATGG
GAAGTGGATTGATGGACTCCAGTTCTCATCACTGTTCTGGCCCCCGCCACACGATGCGCA
GCAGAAACAGGCACAAATTTTAGCCTATGTTGAGTACTTTGGTCAGTTCACATCTGACAG
CGAGCAATTCCCGGAGGATGTAGCTCAGCTAATTCAAACTTGCTATCCATCAAAAGAAAA
GCGGTTGGTAGATGAAGTATTAGCAACTTTTGTTCTCCATCACCCCGAGCATGGTCATGC
AGTTGTACATCCAATTCTTTCACGCATCATAGACGGGACACTGAGTTATGATAGTCATGG
TTCCCCATTCAATTCCTTCATCTCCTTATTTACCCAAAGTTCTGAGAAAGAGTACTCAGA
GCAGTGGGCCTTGGCCTGTGGAGAGATTCTTAGAGTTCTAACTCACTACAACAGGCCAAT
CTTTAAAGTTGCAGACTGTAACAACACCTCTGACCAGGCTACAACAAGTTGTTCTGCACA
GGAGAAAGCTAATTACTCTCCAGGAAATGAACCTGAACGGAAGCCATTGAGGCCATTATC
TCCTTGGATCACAGATATTTTGCTAACTGCACCTTTAGGCATTAGAAGCGACTATTTTAG
ATGGTGTGGTGGAGTTATGGGAAAATACGCAGCTGGTGGAGAATTGAAGCCTCCAACAAC
TGCTTACAGCCGAGGAGCTGGTAAGCACCCACAACTCATGCCATCCACCCCAAGATGGGC
TGTTGCCAATGGAGCTGGAGTTATTTTAAGTGTCTGTGATGAGGAAGTAGCTCGTTATGA
GACAGCAAACTTAACCGCGGCAGCTGTTCCCGCCCTTCTGCTACCTCCACCGACAACACC
CTTGGATGAGCATTTGGTGGCAGGGCTACCCCCTCTTGAGCCATACGCTCGCTTGTTTCA
TAGATACTATGCAATTGCCACACCAAGTGCTACACAAAGATTGCTTTTTGGTCTTCTTGA
AGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTTCAGCTTGTTGAACTCCT
TCGGGCAGCTGAAGATTATGCTACTGGCATGCGGCTTCCAAAAAATTGGTTGCATCTTCA
TTTCTTGCGTGCGATTGGAACTGCAATGTCTATGAGGGCTGGTATTGCTGCCGATACAGC
TGCTGCGTTGCTTTTTCGCATACTATCCCAACCAACGTTGCTTTTTCCTCCACTAAGGCA
TGCTGAAGGAGTTGAAGTGCAACATGAACCACTGGGTGGCTATGTATCATCATACAAAAG
ACAGCTGGAAGTTCCTGCATCTGAAACCACAATTGATGCCACTGCACAAGGCATTGCTTC
CTTGCTGTGTGCTCATGGTCCTGATGTTGAGTGGAGAATATGTACCATCTGGGAAGCTGC
CTATGGTTTGTTACCTCTGAATTCATCAGCAGTTGATTTGCCCGAAATCGTTGTAGCTGC
TCCGCTTCAGCCACCTACTTTGTCATGGAGCCTATACTTGCCACTGTTGAAAGTATTCGA
GTATCTACCTCGTGGAAGTCCATCTGAAGCATGCCTTATGAGAATATTTGTGGCAACAGT
TGAAGCTATACTCAGAAGAACTTTCCCTTCGGAAACCTCTGAATCATCTAAAAGACCAAG
AAGTCAATCCAAGAACCTTGCTGTTGCTGAACTCCGTACAATGATACATTCACTCTTTGT
TGAATCATGTGCTTCAATGAACCTTGCTTCCCGGTTGTTGTTTGTTGTATTAACTGTTTG
CGTCAGTCATCAAGCTTTGCCAGGGGGCAGCAAAAGACCAACGGGTAGTGAAAACCATTC
TTCTGAGGAGGCCACTGAGGACCCAAGATTAACCAATGGAAGAAATAAGGTCAAGAAGAA
ACAAGGGCCTGTTGGTACATTTGACTCGTATGTGCTGGCTGCTGTTTGTGCCTTATCTTG
TGAGCTTCAGCTGTTCCCTATCCTTTGCAAGAGTGCAACAAACTCAAAAGTAAAAGACTC
TATAAAGATCCTGAAGCCTGGAAAAAACAATGGGATCAGTAATGAGCTACAGAATAGCAT
TAGCTCAGCAATTCTCCATACTCGTAGAATTCTTGGCATCCTGGAAGCTCTTTTCTCCTT
GAAGCCATCATCAGTTGGTACCTCCTGGAACTATAGTTCAAATGAGATAGTTGCAGCGGC
TATGGTTGCCGCTCATGTTTCTGAGTTATTTCGCCGGTCGAGGCCATGCCTAAATGCACT
ATCTTCACTGAAGCGATGTAAGTGGGATGCTGAGATTTCTACCAGGGCATCATCCCTTTA
CCATTTGATCGATTTGCATGGTAAAACTGTGTCCTCCATCGTGAACAAAGCTGAGCCTCT
AGAAGCTCACCTGACTTTTACATCAGTAAAGAGAGATGGTCAACAACACATTGAGGAAAA
CAGCACCAGCTCATCGGGTAATGGCAACTTGGAAAAGAAGAATGCTTCAGCCTCACACAT
GAAAAATGGTTTTTCAAGACCACTCTTGAAATGCTCAGAAGAGGCTAGGCGAAATGGTAA
TGTTGCAAGTACATCCGGGAAAGTTCCTGCAACTTTACAGGCTGAAGCATCTGATTTGGC
TAACTTCCTTACCATGGATAGAAATGGGGGTTATCGAGGCTCTCAGACTCTCCTAAGTTC
TGTTATCTCAGAAAAACAGGAATTATGCTTCTCTGTTGTCTCATTGCTCTGGCATAAGCT
TGCATGCNN



Protein Sequence (908 aa)

>BART1_0-u18690.007 908 150831_barley_pseudomolecules
MSASNGKWIDGLQFSSLFWPPPHDAQQKQAQILAYVEYFGQFTSDSEQFPEDVAQLIQTC
YPSKEKRLVDEVLATFVLHHPEHGHAVVHPILSRIIDGTLSYDSHGSPFNSFISLFTQSS
EKEYSEQWALACGEILRVLTHYNRPIFKVADCNNTSDQATTSCSAQEKANYSPGNEPERK
PLRPLSPWITDILLTAPLGIRSDYFRWCGGVMGKYAAGGELKPPTTAYSRGAGKHPQLMP
STPRWAVANGAGVILSVCDEEVARYETANLTAAAVPALLLPPPTTPLDEHLVAGLPPLEP
YARLFHRYYAIATPSATQRLLFGLLEAPPSWAPDALDAAVQLVELLRAAEDYATGMRLPK
NWLHLHFLRAIGTAMSMRAGIAADTAAALLFRILSQPTLLFPPLRHAEGVEVQHEPLGGY
VSSYKRQLEVPASETTIDATAQGIASLLCAHGPDVEWRICTIWEAAYGLLPLNSSAVDLP
EIVVAAPLQPPTLSWSLYLPLLKVFEYLPRGSPSEACLMRIFVATVEAILRRTFPSETSE
SSKRPRSQSKNLAVAELRTMIHSLFVESCASMNLASRLLFVVLTVCVSHQALPGGSKRPT
GSENHSSEEATEDPRLTNGRNKVKKKQGPVGTFDSYVLAAVCALSCELQLFPILCKSATN
SKVKDSIKILKPGKNNGISNELQNSISSAILHTRRILGILEALFSLKPSSVGTSWNYSSN
EIVAAAMVAAHVSELFRRSRPCLNALSSLKRCKWDAEISTRASSLYHLIDLHGKTVSSIV
NKAEPLEAHLTFTSVKRDGQQHIEENSTSSSGNGNLEKKNASASHMKNGFSRPLLKCSEE
ARRNGNVASTSGKVPATLQAEASDLANFLTMDRNGGYRGSQTLLSSVISEKQELCFSVVS
LLWHKLAC