Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u18690.009

ChromosomeExonStartStopDirection
chr3H16742317167421727-
chr3H26742539867425189-
chr3H36742568067425530-
chr3H46742598467425751-
chr3H56742625967426201-
chr3H66742695067426694-
chr3H76742718967427047-
chr3H86742733267427278-
chr3H96742750667427429-
chr3H106742770567427601-
chr3H116742799467427863-
chr3H126742993667429767-


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
morexEMB15.90327.581132.1096
morexETI0.0000005194910.5392380.00185144
morexLEA21.341519.66011.33951
morexEPI0.59053502.77119
morexROO34.013917.15569.50166
morexROO20.00003377830.119220.90569
morexNOD3.8651300.680553
morexRAC1.078380.1141050.555337
morexINF117.660328.577834.4706
morexINF217.50678.015826.62618
morexCAR52.514739.4467716.0018
morexCAR1500.6094011.52156
morexLEM1.291480.162260.0043119
morexLOD01.694340.848147
morexPAL1.442740.6251420.00000000176785
morexSEN0.4089680.0117180.595764



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os01g08700.6 +2 0.0 1140 606/677 (90%) protein|GIGANTEA, putative, expressed
TAIR PP10 AT1G22770 @ ARAPORT
AT1G22770.1 @ TAIR		 +2 0.0 833 470/693 (68%) Symbols: GI, FB | gigantea protein (GI) | chr1:8062398-8067447 FORWARD LENGTH=1173
BRACH PP3 Bradi2g05226.1.p +2 0.0 1187 632/677 (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 (3039 bp)

>BART1_0-u18690.009 3039 150831_barley_pseudomolecules
ATTACGGAAAAAATCTTTTTCTCGCCTCTCCTCGCCCCTCACATTTTTCTCTCTCCTCCT
CCTCCTCCTCTCTGCCTTCGCCTCTGCCTCAGCCTCGCCCGCCGCGCAATCCCGTCGCCG
GCGCCGCCGATTCGCCGCCCGAGCTCCGTATTGGGGCGCTCCCGACCGAGAGACGTTAAG
CGCCTATGGTTGGAACTGGTTGATATGATATCTGGTCACATTGTGGGATGCAATCCCCCC
TTAGTGGGGGGTGATTGAAGAAGTCAACAATAGGAGAACTTGCATCTTGCTGAAGTTTTC
TGGCTCTTAAACTACCAAGTATGTCAGCGTCAAATGGGAAGTGGATTGATGGACTCCAGT
TCTCATCACTGTTCTGGCCCCCGCCACACGATGCGCAGCAGAAACAGGCACAAATTTTAG
CCTATGTTGAGTACTTTGGTCAGTTCACATCTGACAGCGAGCAATTCCCGGAGGATGTAG
CTCAGCTAATTCAAACTTGCTATCCATCAAAAGAAAAGCGGTTGGTAGATGAAGTATTAG
CAACTTTTGTTCTCCATCACCCCGAGCATGGTCATGCAGTTGTACATCCAATTCTTTCAC
GCATCATAGACGGGACACTGAGTTATGATAGTCATGGTTCCCCATTCAATTCCTTCATCT
CCTTATTTACCCAAAGTTCTGAGAAAGAGTACTCAGAGCAGTGGGCCTTGGCCTGTGGAG
AGATTCTTAGAGTTCTAACTCACTACAACAGGCCAATCTTTAAAGTTGCAGACTGTAACA
ACACCTCTGACCAGGCTACAACAAGTTGTTCTGCACAGGAGAAAGCTAATTACTCTCCAG
GAAATGAACCTGAACGGAAGCCATTGAGGCCATTATCTCCTTGGATCACAGATATTTTGC
TAACTGCACCTTTAGGCATTAGAAGCGACTATTTTAGATGGTGTGGTGGAGTTATGGGAA
AATACGCAGCTGGTGGAGAATTGAAGCCTCCAACAACTGCCGAGGAGCTGGTAAGCACCC
ACAACTCATGCCATCCACCCCAAGATGGGCTGTTGCCAATGGAGCTGGAGTTATTTTAAG
TGTCTGTGATGAGGAAGTAGCTCGTTATGAGACAGCAAACTTAACCGCGGCAGCTGTTCC
CGCCCTTCTGCTACCTCCACCGACAACACCCTTGGATGAGCATTTGGTGGCAGGGCTACC
CCCTCTTGAGCCATACGCTCGCTTGTTTCATAGATACTATGCAATTGCCACACCAAGTGC
TACACAAAGATTGCTTTTTGGTCTTCTTGAAGCACCACCATCATGGGCTCCAGATGCACT
TGATGCAGCAGTTCAGCTTGTTGAACTCCTTCGGGCAGCTGAAGATTATGCTACTGGCAT
GCGGCTTCCAAAAAATTGGTTGCATCTTCATTTCTTGCGTGCGATTGGAACTGCAATGTC
TATGAGGGCTGGTATTGCTGCCGATACAGCTGCTGCGTTGCTTTTTCGCATACTATCCCA
ACCAACGTTGCTTTTTCCTCCACTAAGGCATGCTGAAGGAGTTGAAGTGCAACATGAACC
ACTGGGTGGCTATGTATCATCATACAAAAGACAGCTGGAAGTTCCTGCATCTGAAACCAC
AATTGATGCCACTGCACAAGGCATTGCTTCCTTGCTGTGTGCTCATGGTCCTGATGTTGA
GTGGAGAATATGTACCATCTGGGAAGCTGCCTATGGTTTGTTACCTCTGAATTCATCAGC
AGTTGATTTGCCCGAAATCGTTGTAGCTGCTCCGCTTCAGCCACCTACTTTGTCATGGAG
CCTATACTTGCCACTGTTGAAAGTATTCGAGTATCTACCTCGTGGAAGTCCATCTGAAGC
ATGCCTTATGAGAATATTTGTGGCAACAGTTGAAGCTATACTCAGAAGAACTTTCCCTTC
GGAAACCTCTGAATCATCTAAAAGACCAAGAAGTCAATCCAAGAACCTTGCTGTTGCTGA
ACTCCGTACAATGATACATTCACTCTTTGTTGAATCATGTGCTTCAATGAACCTTGCTTC
CCGGTTGTTGTTTGTTGTATTAACTGTTTGCGTCAGTCATCAAGCTTTGCCAGGGGGCAG
CAAAAGACCAACGGGTAGTGAAAACCATTCTTCTGAGGAGGCCACTGAGGACCCAAGATT
AACCAATGGAAGAAATAAGGTCAAGAAGAAACAAGGGCCTGTTGGTACATTTGACTCGTA
TGTGCTGGCTGCTGTTTGTGCCTTATCTTGTGAGCTTCAGCTGTTCCCTATCCTTTGCAA
GAGTGCAACAAACTCAAAAGTAAAAGACTCTATAAAGATCCTGAAGCCTGGAAAAAACAA
TGGGATCAGTAATGAGCTACAGAATAGCATTAGCTCAGCAATTCTCCATACTCGTAGAAT
TCTTGGCATCCTGGAAGCTCTTTTCTCCTTGAAGCCATCATCAGTTGGTACCTCCTGGAA
CTATAGTTCAAATGAGATAGTTGCAGCGGCTATGGTTGCCGCTCATGTTTCTGAGTTATT
TCGCCGGTCGAGGCCATGCCTAAATGCACTATCTTCACTGAAGCGATGTAAGTGGGATGC
TGAGATTTCTACCAGGGCATCATCCCTTTACCATTTGATCGATTTGCATGGTAAAACTGT
GTCCTCCATCGTGAACAAAGCTGAGCCTCTAGAAGCTCACCTGACTTTTACATCAGTAAA
GAGAGATGGTCAACAACACATTGAGGAAAACAGCACCAGCTCATCGGGTAATGGCAACTT
GGAAAAGAAGAATGCTTCAGCCTCACACATGAAAAATGGTTTTTCAAGACCACTCTTGAA
ATGCTCAGAAGAGGCTAGGCGAAATGGTAATGTTGCAAGTACATCCGGGAAAGTTCCTGC
AACTTTACAGGCTGAAGCATCTGATTTGGCTAACTTCCTTACCATGGATAGAAATGGGGG
TTATCGAGGCTCTCAGACTCTCCTAAGTTCTGTTATCTCAGAAAAACAGGAATTATGCTT
CTCTGTTGTCTCATTGCTCTGGCATAAGCTTGCATGCNN



Protein Sequence (700 aa)

>BART1_0-u18690.009 700 150831_barley_pseudomolecules
MVWWSYGKIRSWWRIEASNNCRGAGKHPQLMPSTPRWAVANGAGVILSVCDEEVARYETA
NLTAAAVPALLLPPPTTPLDEHLVAGLPPLEPYARLFHRYYAIATPSATQRLLFGLLEAP
PSWAPDALDAAVQLVELLRAAEDYATGMRLPKNWLHLHFLRAIGTAMSMRAGIAADTAAA
LLFRILSQPTLLFPPLRHAEGVEVQHEPLGGYVSSYKRQLEVPASETTIDATAQGIASLL
CAHGPDVEWRICTIWEAAYGLLPLNSSAVDLPEIVVAAPLQPPTLSWSLYLPLLKVFEYL
PRGSPSEACLMRIFVATVEAILRRTFPSETSESSKRPRSQSKNLAVAELRTMIHSLFVES
CASMNLASRLLFVVLTVCVSHQALPGGSKRPTGSENHSSEEATEDPRLTNGRNKVKKKQG
PVGTFDSYVLAAVCALSCELQLFPILCKSATNSKVKDSIKILKPGKNNGISNELQNSISS
AILHTRRILGILEALFSLKPSSVGTSWNYSSNEIVAAAMVAAHVSELFRRSRPCLNALSS
LKRCKWDAEISTRASSLYHLIDLHGKTVSSIVNKAEPLEAHLTFTSVKRDGQQHIEENST
SSSGNGNLEKKNASASHMKNGFSRPLLKCSEEARRNGNVASTSGKVPATLQAEASDLANF
LTMDRNGGYRGSQTLLSSVISEKQELCFSVVSLLWHKLAC