Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u53381.004

ChromosomeExonStartStopDirection
chr7H1385320482385319776-
chr7H2385320686385320596-
chr7H3385321733385320936-
chr7H4385322055385321816-
chr7H5385322493385322164-
chr7H6385323086385322800-
chr7H7385324231385323651-


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
morexEMB4.9760111.73449.3301
morexETI7.4736417.199216.8774
morexLEA7.1719311.813211.9102
morexEPI3.939184.424692.78607
morexROO6.8185111.59793.73413
morexROO216.280325.789423.1689
morexNOD5.0224616.79754.14065
morexRAC16.689116.372522.2984
morexINF129.640324.974614.9091
morexINF246.98432.093843.7278
morexCAR535.035134.888535.0643
morexCAR1513.690514.609515.8035
morexLEM31.030823.297325.8752
morexLOD45.833142.693330.9685
morexPAL22.462819.739115.0003
morexSEN4.1878914.581110.9229



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g06140.2 +2 0.0 745 447/743 (60%) protein|no apical meristem protein, putative, expressed
TAIR PP10 AT1G33060 @ ARAPORT
AT1G33060.1 @ TAIR		 +2 5e-66 235 117/215 (54%) Symbols: ANAC014, NAC014 | NAC 014 | chr1:11975518-11978493 REVERSE LENGTH=648
BRACH PP3 Bradi3g16480.1.p +2 0.0 831 494/808 (61%) pacid=32813441 transcript=Bradi3g16480.1 locus=Bradi3g16480 ID=Bradi3g16480.1.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 (3034 bp)

>BART1_0-u53381.004 3034 150831_barley_pseudomolecules
GGGGAGATATATATATAGATAGCTTTGTACGTGTTTTTTTGGGGCTTTGCTTTGCGGTTG
CCATCGCTTTCTCTTTGCTTTAATTTCGAGGATCACTCGACAGTGGGCGGCGTGGTCCGG
CGGCAGTGGCCGAACCGTAATACGATGGTCATCAACAGGGTAAACTCGGACGAGGGGGTA
TATACAGAGCAAATTCCGGACACGGTAAAGGAAGTCACGCGGCACTCGCTTTCTTCTCCC
ACACGTCTCCTCCCCGCGTCCTCCCCCTAAAAATCCCCAAATCCGACCAAACCCTAGGCA
AAATCCACTCCCCTCCGCTTCCTTCGCTGCTAAGTATATCCCCTGGGCTCCGAATCTCCT
ACCGGGTTGGGTCTTGTAGTCGTTGGATGAGAGCTTGGGACAGTGGAGGAGGATGACGGT
GATGGAGCTCAAGGCGCTACCGCTCGGTTTCCGGTTCCACCCCACCGACGAGGAGCTCGT
CAGGCACTACCTCAAGGGGAAGATCACGGGGCAGATCAAGAACGAGGTCGAGGTGATCCC
GGAGATCGACGTCTGCAAGTGCGAGCCGTGGGACCTCCCAGATAAAGCTTTGATCCGCTC
GGAGGATCCAGAGTGGTTCTTCTTTGCACCCAAGGACCGCAAATATCCCAATGGAAGCAG
GTCAAACAGGGCGACGGAGGCCGGGTACTGGAAGGCTACCGGGAAGGACAGGGTCATCAA
GTCCAAGGGCGAGAAGAAAAAGCAGCATATGATTGGCATGAAGAAGACCCTTGTGTTCCA
CCGAGGACGTGCTCCAAAAGGGGAGCGCACTGGTTGGATTATGCACGAGTACCGCACCAC
CGAGCCAGAGTTTGAGTCTGGCGAGCAGGGTGGCTATGTTCTGTACCGCCTATTTCAAAA
GCAAGTGGAGAAAACTGAGCGCTCCATTCCGGAGGAAATGGATAGAAGTGGCTACTCTCC
CACTCCATCTCGTTCTACTCCTGACAATATGGAAGCAAACGAGGAAGCTATCACACTCAT
AAATAAGGAATCTCCTGAATCTGGTCTGCATGGATGTCCAATTGAGTTGCCATGTACAAT
TGAAACTCTGGGCGCCCCGGTTACAAGGTGGCTTGCAGACCGAAATGGCAATCCCGGGAC
AGATGAAGCAAACGATGTAGGCATGCCTTTTCATCGTGGTGTCGATGAAAGTCCCAAGGC
CGATCTGTCAGTTGGCTCTCTGGCTCACCTAATTGATTCACAGACGAAAAATCTCGGTTC
TCATGAGTTTGCCACCGTTTCTGCCCCCATGTTACCGGATGACCATTTGGACAATCTTCT
ACTTCATTTAACTCATAATTCGGTGGAAGATTTCTTGAATGAAACAATTGCTGATCCAGA
CGAGCTTTCGTCAACTGCATGTAAAGTTCAGTACGATTCAGACAATGGGATTATGCAGGG
TGATTTGCTATATGATGATCCAAACTGGTTTGGTAATTTTCTGTCAGATGACACAAATCC
ACAACCAAGTGGATTATATGAGAATGCACCATTGCTTCCTTATGGCACTAATCCTGATGT
ACTTTCCATGGACTCCGGCGACGAGTCCTTGCAAGATTTGTTCAATAGCATGGACGATTC
AAGTTGGCAGAATGATGTATGGAGCAACGGATTTGGATTTAATCCCATGCATCAGCAGTT
ACAGTCTACTGTGCATCCGAACTATATATTTTCTCAACAGGGCATTGCACGCAGGAGGCT
TCGGCTACTAGATTCATTGTCTGATGTCAATGTTGAGAGTAGAGAGAGCATGACCAGAGA
TGAACATGAAGATGAAGAATCAGATATTGTAACTTCGAAATATAGGAGTGAATCTGTTGA
ATCATCTGCAGATGTAGATGAGTCTGAGTCAACCGGGGTTACTATTATGAGCCGGCGCCG
TGCTCTAACTAAAAGTGTGCCTTCCGACCGCGATGATGCTGAATCAACGGGGATTACTAT
TATGGGCCGGCGCTCTGCTCCAAGTTCAAATGCGCCTTCCGATGAAGCTGATGCTGAGGC
AACAGGGATTAATATTGTGAGCCGACGCACTGCTCCAAGTTCAAGCACAGATAACTCATT
TACCACCGAACAGGGGACTGCAGTGCGAAGGTTGCGGCTACAATCGAACCTTGACGCAGG
ATCATGTTCCAGTGTTGATGGTTTGTCAAGTTGCATTATAGAACATGGAAGTGAAAACGA
AGGGCTGGAAGCTGAGATTGACGAGCATGTGGATACAAACTTCCTTGATGATGTTGGTTT
TGCTGGCAACAGTCATGCTGATGAGCATATGTACATGCCTGATCATGAAGCTAATTCTCT
TACGAGGCTGCGGAAGACAGCAGAGAAAAGCGACAAGGAGAACAAGCAGGAGTGTGGTCC
CCAGTCACATGTGAGAGCACCAAGGAAGAGGGGAGGCTTCGCAGCACGCATGATCTTGCC
AGTTCTGTCGGTGGCTCTTCTCGTTCTTGTTAGCGTTGGGGTCTACGGATGGGCATAATA
GCTCTCTTAAAATGGGATTTAATGTGTCACATTTTCCCCACATCGGCTGTGAGCATTGTA
CATACTGTGTCTTACTGCCCGCGTTTAGACGGTTGTAAGACAGAGAAGTGTTTGTTCCCC
TTTCGGCGGGGAAGTGTAAGTGAGGTAGCAAATGAGAAGCGGGATGAAGCAAGGAGCAAG
TGTTGCTGTAGATGCCTGTGACTTGGTACATGCTAGTTTTCGTTTTTCTGTCACCGCAGG
TGTTGGCAACCAGGTTGTAGTCATCCATTATGCGTGTTGTTGTGATGTTGTAAGGTCTGA
ACCTAATTAGATCTGTTGCAGATCCTTTTTCCCATTTTGTGGAACTTTGCAGTCGCTTCA
TTTTTAGTGATGCAGTTGCTTCATTTTTAGTGATTCATCTCCCAATTTTAAGCGGGGTGA
AATACTACCTGAGCTCTCAGCAGTCAGCACCAGCACACATCTGGTAAAAAAGAAAACCGA
GGTAAAGTAATTGCCGCCCTGCCGCCGCCGCAGC



Protein Sequence (701 aa)

>BART1_0-u53381.004 701 150831_barley_pseudomolecules
MTVMELKALPLGFRFHPTDEELVRHYLKGKITGQIKNEVEVIPEIDVCKCEPWDLPDKAL
IRSEDPEWFFFAPKDRKYPNGSRSNRATEAGYWKATGKDRVIKSKGEKKKQHMIGMKKTL
VFHRGRAPKGERTGWIMHEYRTTEPEFESGEQGGYVLYRLFQKQVEKTERSIPEEMDRSG
YSPTPSRSTPDNMEANEEAITLINKESPESGLHGCPIELPCTIETLGAPVTRWLADRNGN
PGTDEANDVGMPFHRGVDESPKADLSVGSLAHLIDSQTKNLGSHEFATVSAPMLPDDHLD
NLLLHLTHNSVEDFLNETIADPDELSSTACKVQYDSDNGIMQGDLLYDDPNWFGNFLSDD
TNPQPSGLYENAPLLPYGTNPDVLSMDSGDESLQDLFNSMDDSSWQNDVWSNGFGFNPMH
QQLQSTVHPNYIFSQQGIARRRLRLLDSLSDVNVESRESMTRDEHEDEESDIVTSKYRSE
SVESSADVDESESTGVTIMSRRRALTKSVPSDRDDAESTGITIMGRRSAPSSNAPSDEAD
AEATGINIVSRRTAPSSSTDNSFTTEQGTAVRRLRLQSNLDAGSCSSVDGLSSCIIEHGS
ENEGLEAEIDEHVDTNFLDDVGFAGNSHADEHMYMPDHEANSLTRLRKTAEKSDKENKQE
CGPQSHVRAPRKRGGFAARMILPVLSVALLVLVSVGVYGWA