Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u53381.003

ChromosomeExonStartStopDirection
chr7H1385320482385319661-
chr7H2385320686385320596-
chr7H3385321733385320936-
chr7H4385322058385321816-
chr7H5385322493385322164-
chr7H6385323086385322800-
chr7H7385324170385323651-


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
morexEMB0.001327790.004475670
morexETI00.000000004863360.000000158882
morexLEA0.00000003003260.00001280510.0000000134443
morexEPI0.0000001956270.000000005242740
morexROO00.000007455960
morexROO20.00001792330.000001517550.0000482533
morexNOD00.0003453050
morexRAC0.00000001163360.000000007074020.00000000039883
morexINF10.000026641701.57073
morexINF200.00002531530.0000446452
morexCAR52.139330.00001794520.0000153623
morexCAR150.0000009413111.15520.0000199785
morexLEM0.0000005355420.00000008210730.0000000911743
morexLOD0.0000002332050.0000001159340.0000000259344
morexPAL0.00001051220.000000001621910.000000000355148
morexSEN0.000000001891660.00000009958160.0000285836



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g06140.1 +1 0.0 747 448/744 (60%) protein|no apical meristem protein, putative, expressed
TAIR PP10 AT1G33060 @ ARAPORT
AT1G33060.1 @ TAIR		 +1 5e-66 235 117/215 (54%) Symbols: ANAC014, NAC014 | NAC 014 | chr1:11975518-11978493 REVERSE LENGTH=648
BRACH PP3 Bradi3g16480.1.p +1 0.0 831 494/809 (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 (3091 bp)

>BART1_0-u53381.003 3091 150831_barley_pseudomolecules
CATCGCTTTCTCTTTGCTTTAATTTCGAGGATCACTCGACAGTGGGCGGCGTGGTCCGGC
GGCAGTGGCCGAACCGTAATACGATGGTCATCAACAGGGTAAACTCGGACGAGGGGGTAT
ATACAGAGCAAATTCCGGACACGGTAAAGGAAGTCACGCGGCACTCGCTTTCTTCTCCCA
CACGTCTCCTCCCCGCGTCCTCCCCCTAAAAATCCCCAAATCCGACCAAACCCTAGGCAA
AATCCACTCCCCTCCGCTTCCTTCGCTGCTAAGTATATCCCCTGGGCTCCGAATCTCCTA
CCGGGTTGGGTCTTGTAGTCGTTGGATGAGAGCTTGGGACAGTGGAGGAGGATGACGGTG
ATGGAGCTCAAGGCGCTACCGCTCGGTTTCCGGTTCCACCCCACCGACGAGGAGCTCGTC
AGGCACTACCTCAAGGGGAAGATCACGGGGCAGATCAAGAACGAGGTCGAGGTGATCCCG
GAGATCGACGTCTGCAAGTGCGAGCCGTGGGACCTCCCAGATAAAGCTTTGATCCGCTCG
GAGGATCCAGAGTGGTTCTTCTTTGCACCCAAGGACCGCAAATATCCCAATGGAAGCAGG
TCAAACAGGGCGACGGAGGCCGGGTACTGGAAGGCTACCGGGAAGGACAGGGTCATCAAG
TCCAAGGGCGAGAAGAAAAAGCAGCATATGATTGGCATGAAGAAGACCCTTGTGTTCCAC
CGAGGACGTGCTCCAAAAGGGGAGCGCACTGGTTGGATTATGCACGAGTACCGCACCACC
GAGCCAGAGTTTGAGTCTGGCGAGCAGGGTGGCTATGTTCTGTACCGCCTATTTCAAAAG
CAAGTGGAGAAAACTGAGCGCTCCATTCCGGAGGAAATGGATAGAAGTGGCTACTCTCCC
ACTCCATCTCGTTCTACTCCTGACAATATGGAAGCAAACGAGGAAGCTATCACACTCATA
AATAAGGAATCTCCTGAATCTGGTCTGCATGGATGTCCAATTGAGTTGCCATGTACAATT
GAAACTCTGGGCGCCCCGGTTACAAGGTGGCTTGCAGACCGAAATGGCAATCCCGGGACA
GATGAAGCAAACGATGTAGGCATGCCTTTTCATCGTGGTGTCGATGAAAGTCCCAAGCAG
GCCGATCTGTCAGTTGGCTCTCTGGCTCACCTAATTGATTCACAGACGAAAAATCTCGGT
TCTCATGAGTTTGCCACCGTTTCTGCCCCCATGTTACCGGATGACCATTTGGACAATCTT
CTACTTCATTTAACTCATAATTCGGTGGAAGATTTCTTGAATGAAACAATTGCTGATCCA
GACGAGCTTTCGTCAACTGCATGTAAAGTTCAGTACGATTCAGACAATGGGATTATGCAG
GGTGATTTGCTATATGATGATCCAAACTGGTTTGGTAATTTTCTGTCAGATGACACAAAT
CCACAACCAAGTGGATTATATGAGAATGCACCATTGCTTCCTTATGGCACTAATCCTGAT
GTACTTTCCATGGACTCCGGCGACGAGTCCTTGCAAGATTTGTTCAATAGCATGGACGAT
TCAAGTTGGCAGAATGATGTATGGAGCAACGGATTTGGATTTAATCCCATGCATCAGCAG
TTACAGTCTACTGTGCATCCGAACTATATATTTTCTCAACAGGGCATTGCACGCAGGAGG
CTTCGGCTACTAGATTCATTGTCTGATGTCAATGTTGAGAGTAGAGAGAGCATGACCAGA
GATGAACATGAAGATGAAGAATCAGATATTGTAACTTCGAAATATAGGAGTGAATCTGTT
GAATCATCTGCAGATGTAGATGAGTCTGAGTCAACCGGGGTTACTATTATGAGCCGGCGC
CGTGCTCTAACTAAAAGTGTGCCTTCCGACCGCGATGATGCTGAATCAACGGGGATTACT
ATTATGGGCCGGCGCTCTGCTCCAAGTTCAAATGCGCCTTCCGATGAAGCTGATGCTGAG
GCAACAGGGATTAATATTGTGAGCCGACGCACTGCTCCAAGTTCAAGCACAGATAACTCA
TTTACCACCGAACAGGGGACTGCAGTGCGAAGGTTGCGGCTACAATCGAACCTTGACGCA
GGATCATGTTCCAGTGTTGATGGTTTGTCAAGTTGCATTATAGAACATGGAAGTGAAAAC
GAAGGGCTGGAAGCTGAGATTGACGAGCATGTGGATACAAACTTCCTTGATGATGTTGGT
TTTGCTGGCAACAGTCATGCTGATGAGCATATGTACATGCCTGATCATGAAGCTAATTCT
CTTACGAGGCTGCGGAAGACAGCAGAGAAAAGCGACAAGGAGAACAAGCAGGAGTGTGGT
CCCCAGTCACATGTGAGAGCACCAAGGAAGAGGGGAGGCTTCGCAGCACGCATGATCTTG
CCAGTTCTGTCGGTGGCTCTTCTCGTTCTTGTTAGCGTTGGGGTCTACGGATGGGCATAA
TAGCTCTCTTAAAATGGGATTTAATGTGTCACATTTTCCCCACATCGGCTGTGAGCATTG
TACATACTGTGTCTTACTGCCCGCGTTTAGACGGTTGTAAGACAGAGAAGTGTTTGTTCC
CCTTTCGGCGGGGAAGTGTAAGTGAGGTAGCAAATGAGAAGCGGGATGAAGCAAGGAGCA
AGTGTTGCTGTAGATGCCTGTGACTTGGTACATGCTAGTTTTCGTTTTTCTGTCACCGCA
GGTGTTGGCAACCAGGTTGTAGTCATCCATTATGCGTGTTGTTGTGATGTTGTAAGGTCT
GAACCTAATTAGATCTGTTGCAGATCCTTTTTCCCATTTTGTGGAACTTTGCAGTCGCTT
CATTTTTAGTGATGCAGTTGCTTCATTTTTAGTGATTCATCTCCCAATTTTAAGCGGGGT
GAAATACTACCTGAGCTCTCAGCAGTCAGCACCAGCACACATCTGGTAAAAAAGAAAACC
GAGGTAAAGTAATTGCCGCCCTGCCGCCGCCGCAGCGAGAAAAAGAAGAGATGTGGACTT
TTTCAGACTTTAATCTGAAACTATAGCATAAACTAAACTTTGTATGAAACTATTTCACGA
TGTGACCCTTTTAAAAATGTTAGAACCTGTG



Protein Sequence (702 aa)

>BART1_0-u53381.003 702 150831_barley_pseudomolecules
MTVMELKALPLGFRFHPTDEELVRHYLKGKITGQIKNEVEVIPEIDVCKCEPWDLPDKAL
IRSEDPEWFFFAPKDRKYPNGSRSNRATEAGYWKATGKDRVIKSKGEKKKQHMIGMKKTL
VFHRGRAPKGERTGWIMHEYRTTEPEFESGEQGGYVLYRLFQKQVEKTERSIPEEMDRSG
YSPTPSRSTPDNMEANEEAITLINKESPESGLHGCPIELPCTIETLGAPVTRWLADRNGN
PGTDEANDVGMPFHRGVDESPKQADLSVGSLAHLIDSQTKNLGSHEFATVSAPMLPDDHL
DNLLLHLTHNSVEDFLNETIADPDELSSTACKVQYDSDNGIMQGDLLYDDPNWFGNFLSD
DTNPQPSGLYENAPLLPYGTNPDVLSMDSGDESLQDLFNSMDDSSWQNDVWSNGFGFNPM
HQQLQSTVHPNYIFSQQGIARRRLRLLDSLSDVNVESRESMTRDEHEDEESDIVTSKYRS
ESVESSADVDESESTGVTIMSRRRALTKSVPSDRDDAESTGITIMGRRSAPSSNAPSDEA
DAEATGINIVSRRTAPSSSTDNSFTTEQGTAVRRLRLQSNLDAGSCSSVDGLSSCIIEHG
SENEGLEAEIDEHVDTNFLDDVGFAGNSHADEHMYMPDHEANSLTRLRKTAEKSDKENKQ
ECGPQSHVRAPRKRGGFAARMILPVLSVALLVLVSVGVYGWA