Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20988.007

ChromosomeExonStartStopDirection
chr3H1413470312413469265-
chr3H2413471866413470388-
chr3H3413472753413472688-
chr3H4413474688413474390-


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
morexEMB15.346128.657228.9674
morexETI5.7047811.21412.2978
morexLEA14.604816.449838.5779
morexEPI4.1269322.412910.0525
morexROO19.565613.37792.54353
morexROO219.627216.631223.9487
morexNOD13.60714.655922.0933
morexRAC36.190431.708822.4877
morexINF111.132321.768821.676
morexINF215.019114.63611.9358
morexCAR525.39928.663535.4279
morexCAR1510.995916.07686.03109
morexLEM24.129813.368110.818
morexLOD23.937320.689122.2292
morexPAL11.696610.06089.4899
morexSEN15.67412.280113.5442



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os01g43372.1 +2 0.0 768 468/646 (72%) protein|expressed protein
TAIR PP10 AT1G64140 @ ARAPORT
AT1G64140.1 @ TAIR		 +2 1e-148 455 280/545 (51%) Symbols: | BEST Arabidopsis thaliana protein match is: loricrin-related (TAIR:AT5G64550.1); Has 3596 Blast hits to 2004 proteins in 150 species: Archae - 0; Bacteria - 54; Metazoa - 1597; Fungi - 38; Plants - 513; Viruses - 9; Other Eukaryotes - 1385 (source: NCBI BLink). | chr1:23804069-23806009 REVERSE LENGTH=646
BRACH PP3 Bradi2g43880.2.p +2 0.0 920 519/635 (82%) pacid=32778732 transcript=Bradi2g43880.2 locus=Bradi2g43880 ID=Bradi2g43880.2.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 (2892 bp)

>BART1_0-u20988.007 2892 150831_barley_pseudomolecules
AACGGGGTGGCCACAGCGATTTACCTGTGGCGCCCCGACCCGCCCCACTCCTTCCTCTCT
CTCTCTCTCTTTTATAGCGCTCCCCCTGCGCGCCTGCGTCCTCGGTTTTTCTCCGCTGAG
CTTTCCTTCAACCCCGCTCAGCTCCCTCCCTTCCTACAAATCTGGTCTGGTGGGCGCTGT
TCGCCGCGGCGGGTCTCTCGCGCCCGCGCTCCCGCAACAACCTCAAAACCCTAGCCATCC
TCGCGACCCAGTCGATTGGATCGACCGCTTCCTCCTCCTCCGCCCAGACCCAGACCCAGG
GACCGCTGATTTCACTCCTGTGTGTTTTCAACTCACTTGGGATCCGCGAGAGTGCTGCTA
TACTGCAGGATCATCGCTTTCTGTTTGGCCTGAGCTGTGGAAGTTTCTAAGTAGAAACTG
AGGGTCAGTTCAAAACTTTATCCCACTCACCCCATACATACTGGCGAGAAATGGATCGTG
ATGATGTATCTGGCTTTGTTAGCGGGGGTTGCAAGCTGTTCTGAGTTTTCTAACCTAGTA
GAAGTTAATAAATAAAGTTATGATACCAGGAAGTCAGTCAACTGGCGGTTCTTTTCATTT
ACTAATTGGTTGATGTTTCCGAATTGGAATGGACAAAACTTCTCATGGCCTTGGATTTGG
TGATAGCATCAACTCGTTAAACACTTCTCATTACCGGAGTTCAGTCCAACACACTGCTCA
GCATAGAGACACTACACTTGATTCCACATCATATTCCAGCTTCTCATCCACCAACACAAA
AGCCCTGAAAAGGAAGTGGGGTACTATGGCTGGAGCAGAAGGTACTGGGGATGCATTACT
CACTCTGGGTTTAGGCCGTTCACCAAGTTCATCTGACAATAGCAAAGTAAGCTCTGCCAC
AGCCTGTGCAATGTCTCCATGCTCGCTAAAGGAGGCTGATGAGGAGTCATCTGTTGATCT
TAGCTTGAATTTTGAGCTTTCCCTTGGCAATGATGTTGCACGTTTTCAAAGGAAATCCTC
TGCTGGTTTAGTAGCCAATTCTCCTAAACTGGATCTTCAGTTGAGTTTATCCACTGGCTC
ACCTGAATCTGCTGTCACTTGTACAAATATGGTGTCACCAAATATTCATGATGGCTTGGA
CATACCAGTGACCTATTCATTACCAGCCATTATAGGGAATGGGTCAGCACCGTCTAGTTG
GGGTTTTGAGCACTCTGTGGTTTCATCATCATATGCGTCTGAAGCAACATATGCATTTCC
ATTTTCGAAGATACCCAGACAAGAGAATGGTACTTTGTCTTCACCAGTCATATCGTCAAC
TATGCCAGCAAGTGTGAAGAGCTCAGTTGCCTGTACTTCGGTGGTAACTAACCCTCAGCA
GCGCAATCTTAACACTAAAACCTGCCAGTTCCCTGGATGTGGCAAAGGGGCAAGAGGTGC
ATCAGGGCATTGTATAGCCCATGGTGGTGGTAGGCGATGCCAGAAAGCTGGTTGCCAGAA
GGGTGCTGAAGGAAGGACCATATATTGCAAGGCCCATGGTGGAGGGAGGAGATGTGAGTT
TCTTGGATGTACAAAGAGCGCTGAAGGACGCACCGACCACTGCATTGCCCATGGTGGTGG
CCGCCGGTGCAGTAATGATGGCTGCTCCCGTGCTGCCCGAGGAAGATCTGGCTTATGCAT
CAGGCATGGTGGTGGAAAAAGGTGTCAGCAGGAGAAGTGCACCAAGAGCGCAGAAGGTCA
TTCTGGCCTCTGCATCTCTCATGGGGGTGGGAGGCGCTGCCAGTTTCCAGAATGTGCAAA
GGGTGCACAGGGAAGCACAAAGTTCTGCAAGGCACATGGTGGAGGCAAGCGCTGCTTATT
TGAGGGTGGTGGAGTGTGCCCCAAGAGCGTGCATGGCGGGACGCAGTACTGTGTTGCGCA
CGGTGGTGGCAAGAGGTGCGCTATTTCTGATTGCACCAAGAGTGCTAGAGGGCGGACGGA
GTACTGCGTGCGCCATGGTGGTGGCAAGAGATGCAGGTTCGACGGCTGTGTGAAGAGTGC
ACAGGGGAGCACTGATTTCTGCAAGGCGCATGGGGGAGGCAAACGCTGCTCATGGGGCCT
GCCGGGCTCAAGCTTCGGTATTGGCACTGAGCAGTGTGATAAGTTTGCTCGCAGCAAGAC
TGGCCTCTGTTCAGCTCACACCGCTCTAGTCCAGGACCACTGTGTTCATGGTGGTGGTAC
ATTAGGCCCTGTAATCCACCACTTCGCCGCAGATGTTAAACCCGGCGAGATGGAAGTTGC
TGCAGCAGTGAAGGTTGATCCTGTTTCGATGCAGTCGGGGTCTCCATTGCCGGAGCCGGA
GGGCAGGGTGCATGGTGGTGGGCTGCTGGCGCTGCTTTCTCGCGGCGGCAACCACACAGG
CCCTGTTGGTAACTCCGATAACGGCGCTTCTGTCATGATGGCGTGGATGTGAGCGGGCGG
GCATTCTCATCAAGAATTGGTTGCTTCAAGTTTTGATCTGTTTCCAGAGCTAATGCTGTG
GCGGGATAAAGTTCCACATTTCACCAATTGTTGTCCTAGTCGTTTGGAACTGGTAGGACA
TATATCCTCCGTGTAGAATAAATAAGGGAGAGCGTTGTGGGCTTCTCTGTTATTGTAATG
TAATTAATTAATTAATGTCGTCAAACTGCCCTTGCTTTGTGTTTATTACAATTTGTGTAA
TCTGATACTACTTCACAGTTCCTACTTGGATACAATGTCTTCGCAGTTTGCTTTGCTTTG
TGTTTCTGGTAACACTGTAGTATGTGCTTTGTGTTTCTGGTAAAGTGGTAATACTGTAGT
CTGTAGTACAACTTTTTTGGCGGGTGAGGGTTATCTGGTCATGTCATCAGATAATTCTCT
TCCGCCATCAAC



Protein Sequence (607 aa)

>BART1_0-u20988.007 607 150831_barley_pseudomolecules
MDKTSHGLGFGDSINSLNTSHYRSSVQHTAQHRDTTLDSTSYSSFSSTNTKALKRKWGTM
AGAEGTGDALLTLGLGRSPSSSDNSKVSSATACAMSPCSLKEADEESSVDLSLNFELSLG
NDVARFQRKSSAGLVANSPKLDLQLSLSTGSPESAVTCTNMVSPNIHDGLDIPVTYSLPA
IIGNGSAPSSWGFEHSVVSSSYASEATYAFPFSKIPRQENGTLSSPVISSTMPASVKSSV
ACTSVVTNPQQRNLNTKTCQFPGCGKGARGASGHCIAHGGGRRCQKAGCQKGAEGRTIYC
KAHGGGRRCEFLGCTKSAEGRTDHCIAHGGGRRCSNDGCSRAARGRSGLCIRHGGGKRCQ
QEKCTKSAEGHSGLCISHGGGRRCQFPECAKGAQGSTKFCKAHGGGKRCLFEGGGVCPKS
VHGGTQYCVAHGGGKRCAISDCTKSARGRTEYCVRHGGGKRCRFDGCVKSAQGSTDFCKA
HGGGKRCSWGLPGSSFGIGTEQCDKFARSKTGLCSAHTALVQDHCVHGGGTLGPVIHHFA
ADVKPGEMEVAAAVKVDPVSMQSGSPLPEPEGRVHGGGLLALLSRGGNHTGPVGNSDNGA
SVMMAWM