Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u53381.001

ChromosomeExonStartStopDirection
chr7H1385320482385319661-
chr7H2385320686385320596-
chr7H3385321739385320936-
chr7H4385322058385321816-
chr7H5385322493385322164-
chr7H6385323086385322800-
chr7H7385324348385323651-


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
morexEMB00.00003202340
morexETI0.000000558120.00000000468080.000248214
morexLEA000
morexEPI000
morexROO000
morexROO20.0000000009101480.0000005610870.00000157515
morexNOD00.000002958350
morexRAC000
morexINF10.0000000092061400.00000000176629
morexINF200.000002045530.0134904
morexCAR5000.0000000704468
morexCAR15000
morexLEM0.00000000029000800.000000000144028
morexLOD000
morexPAL0.0000005776080.00002262440
morexSEN00.000000005715280.0659697



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g06140.1 +2 0.0 745 447/744 (60%) protein|no apical meristem protein, putative, expressed
TAIR PP10 AT1G33060 @ ARAPORT
AT1G33060.1 @ TAIR		 +2 8e-66 235 117/215 (54%) Symbols: ANAC014, NAC014 | NAC 014 | chr1:11975518-11978493 REVERSE LENGTH=648
BRACH PP3 Bradi3g16480.1.p +2 0.0 830 494/809 (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 (3275 bp)

>BART1_0-u53381.001 3275 150831_barley_pseudomolecules
CGGGGAGGGGGTTATTAAATATAAACGAAACATTTTTTTTATAACTTAAAAACGTACAAC
GGGTTGAATATTGGAAAAGCGAGGGTGTTTTTGCAAAAAAGCCAGGCTTTATTATCAGGG
GAGATATATATATAGATAGCTTTGTACGTGTTTTTTTGGGGCTTTGCTTTGCGGTTGCCA
TCGCTTTCTCTTTGCTTTAATTTCGAGGATCACTCGACAGTGGGCGGCGTGGTCCGGCGG
CAGTGGCCGAACCGTAATACGATGGTCATCAACAGGGTAAACTCGGACGAGGGGGTATAT
ACAGAGCAAATTCCGGACACGGTAAAGGAAGTCACGCGGCACTCGCTTTCTTCTCCCACA
CGTCTCCTCCCCGCGTCCTCCCCCTAAAAATCCCCAAATCCGACCAAACCCTAGGCAAAA
TCCACTCCCCTCCGCTTCCTTCGCTGCTAAGTATATCCCCTGGGCTCCGAATCTCCTACC
GGGTTGGGTCTTGTAGTCGTTGGATGAGAGCTTGGGACAGTGGAGGAGGATGACGGTGAT
GGAGCTCAAGGCGCTACCGCTCGGTTTCCGGTTCCACCCCACCGACGAGGAGCTCGTCAG
GCACTACCTCAAGGGGAAGATCACGGGGCAGATCAAGAACGAGGTCGAGGTGATCCCGGA
GATCGACGTCTGCAAGTGCGAGCCGTGGGACCTCCCAGATAAAGCTTTGATCCGCTCGGA
GGATCCAGAGTGGTTCTTCTTTGCACCCAAGGACCGCAAATATCCCAATGGAAGCAGGTC
AAACAGGGCGACGGAGGCCGGGTACTGGAAGGCTACCGGGAAGGACAGGGTCATCAAGTC
CAAGGGCGAGAAGAAAAAGCAGCATATGATTGGCATGAAGAAGACCCTTGTGTTCCACCG
AGGACGTGCTCCAAAAGGGGAGCGCACTGGTTGGATTATGCACGAGTACCGCACCACCGA
GCCAGAGTTTGAGTCTGGCGAGCAGGGTGGCTATGTTCTGTACCGCCTATTTCAAAAGCA
AGTGGAGAAAACTGAGCGCTCCATTCCGGAGGAAATGGATAGAAGTGGCTACTCTCCCAC
TCCATCTCGTTCTACTCCTGACAATATGGAAGCAAACGAGGAAGCTATCACACTCATAAA
TAAGGAATCTCCTGAATCTGGTCTGCATGGATGTCCAATTGAGTTGCCATGTACAATTGA
AACTCTGGGCGCCCCGGTTACAAGGTGGCTTGCAGACCGAAATGGCAATCCCGGGACAGA
TGAAGCAAACGATGTAGGCATGCCTTTTCATCGTGGTGTCGATGAAAGTCCCAAGCAGGC
CGATCTGTCAGTTGGCTCTCTGGCTCACCTAATTGATTCACAGACGAAAAATCTCGGTTC
TCATGAGTTTGCCACCGTTTCTGCCCCCATGTTACCGGATGACCATTTGGACAATCTTCT
ACTTCATTTAACTCATAATTCGGTGGAAGATTTCTTGAATGAAACAATTGCTGATCCAGA
CGAGCTTTCGTCAACTGCATGTAAAGTTCAGTACGATTCAGACAATGGGATTATGCAGGC
TCAGGGTGATTTGCTATATGATGATCCAAACTGGTTTGGTAATTTTCTGTCAGATGACAC
AAATCCACAACCAAGTGGATTATATGAGAATGCACCATTGCTTCCTTATGGCACTAATCC
TGATGTACTTTCCATGGACTCCGGCGACGAGTCCTTGCAAGATTTGTTCAATAGCATGGA
CGATTCAAGTTGGCAGAATGATGTATGGAGCAACGGATTTGGATTTAATCCCATGCATCA
GCAGTTACAGTCTACTGTGCATCCGAACTATATATTTTCTCAACAGGGCATTGCACGCAG
GAGGCTTCGGCTACTAGATTCATTGTCTGATGTCAATGTTGAGAGTAGAGAGAGCATGAC
CAGAGATGAACATGAAGATGAAGAATCAGATATTGTAACTTCGAAATATAGGAGTGAATC
TGTTGAATCATCTGCAGATGTAGATGAGTCTGAGTCAACCGGGGTTACTATTATGAGCCG
GCGCCGTGCTCTAACTAAAAGTGTGCCTTCCGACCGCGATGATGCTGAATCAACGGGGAT
TACTATTATGGGCCGGCGCTCTGCTCCAAGTTCAAATGCGCCTTCCGATGAAGCTGATGC
TGAGGCAACAGGGATTAATATTGTGAGCCGACGCACTGCTCCAAGTTCAAGCACAGATAA
CTCATTTACCACCGAACAGGGGACTGCAGTGCGAAGGTTGCGGCTACAATCGAACCTTGA
CGCAGGATCATGTTCCAGTGTTGATGGTTTGTCAAGTTGCATTATAGAACATGGAAGTGA
AAACGAAGGGCTGGAAGCTGAGATTGACGAGCATGTGGATACAAACTTCCTTGATGATGT
TGGTTTTGCTGGCAACAGTCATGCTGATGAGCATATGTACATGCCTGATCATGAAGCTAA
TTCTCTTACGAGGCTGCGGAAGACAGCAGAGAAAAGCGACAAGGAGAACAAGCAGGAGTG
TGGTCCCCAGTCACATGTGAGAGCACCAAGGAAGAGGGGAGGCTTCGCAGCACGCATGAT
CTTGCCAGTTCTGTCGGTGGCTCTTCTCGTTCTTGTTAGCGTTGGGGTCTACGGATGGGC
ATAATAGCTCTCTTAAAATGGGATTTAATGTGTCACATTTTCCCCACATCGGCTGTGAGC
ATTGTACATACTGTGTCTTACTGCCCGCGTTTAGACGGTTGTAAGACAGAGAAGTGTTTG
TTCCCCTTTCGGCGGGGAAGTGTAAGTGAGGTAGCAAATGAGAAGCGGGATGAAGCAAGG
AGCAAGTGTTGCTGTAGATGCCTGTGACTTGGTACATGCTAGTTTTCGTTTTTCTGTCAC
CGCAGGTGTTGGCAACCAGGTTGTAGTCATCCATTATGCGTGTTGTTGTGATGTTGTAAG
GTCTGAACCTAATTAGATCTGTTGCAGATCCTTTTTCCCATTTTGTGGAACTTTGCAGTC
GCTTCATTTTTAGTGATGCAGTTGCTTCATTTTTAGTGATTCATCTCCCAATTTTAAGCG
GGGTGAAATACTACCTGAGCTCTCAGCAGTCAGCACCAGCACACATCTGGTAAAAAAGAA
AACCGAGGTAAAGTAATTGCCGCCCTGCCGCCGCCGCAGCGAGAAAAAGAAGAGATGTGG
ACTTTTTCAGACTTTAATCTGAAACTATAGCATAAACTAAACTTTGTATGAAACTATTTC
ACGATGTGACCCTTTTAAAAATGTTAGAACCTGTG



Protein Sequence (704 aa)

>BART1_0-u53381.001 704 150831_barley_pseudomolecules
MTVMELKALPLGFRFHPTDEELVRHYLKGKITGQIKNEVEVIPEIDVCKCEPWDLPDKAL
IRSEDPEWFFFAPKDRKYPNGSRSNRATEAGYWKATGKDRVIKSKGEKKKQHMIGMKKTL
VFHRGRAPKGERTGWIMHEYRTTEPEFESGEQGGYVLYRLFQKQVEKTERSIPEEMDRSG
YSPTPSRSTPDNMEANEEAITLINKESPESGLHGCPIELPCTIETLGAPVTRWLADRNGN
PGTDEANDVGMPFHRGVDESPKQADLSVGSLAHLIDSQTKNLGSHEFATVSAPMLPDDHL
DNLLLHLTHNSVEDFLNETIADPDELSSTACKVQYDSDNGIMQAQGDLLYDDPNWFGNFL
SDDTNPQPSGLYENAPLLPYGTNPDVLSMDSGDESLQDLFNSMDDSSWQNDVWSNGFGFN
PMHQQLQSTVHPNYIFSQQGIARRRLRLLDSLSDVNVESRESMTRDEHEDEESDIVTSKY
RSESVESSADVDESESTGVTIMSRRRALTKSVPSDRDDAESTGITIMGRRSAPSSNAPSD
EADAEATGINIVSRRTAPSSSTDNSFTTEQGTAVRRLRLQSNLDAGSCSSVDGLSSCIIE
HGSENEGLEAEIDEHVDTNFLDDVGFAGNSHADEHMYMPDHEANSLTRLRKTAEKSDKEN
KQECGPQSHVRAPRKRGGFAARMILPVLSVALLVLVSVGVYGWA