Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u54453.044

ChromosomeExonStartStopDirection
chr7H1514442603514442364-
chr7H2514442934514442719-
chr7H3514443422514443015-
chr7H4514444358514443512-
chr7H5514444754514444530-


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
morexEMB0.1762260.390480
morexETI00.3499110.29828
morexLEA0.43464500
morexEPI000.223973
morexROO0.44903300.254889
morexROO200.09738060.160204
morexNOD0.3272240.3073990
morexRAC0.42392700.00108586
morexINF10.3052380.2808280.227661
morexINF20.1649930.3587580.236156
morexCAR50.1488710.1622130.432979
morexCAR15000
morexLEM00.3831340.0497806
morexLOD0.20959900.198353
morexPAL00.1660910
morexSEN00.3190990.000000000604603



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g09250.2 +2 1e-84 268 134/174 (77%) protein|glyoxalase family protein, putative, expressed
TAIR PP10 AT1G67280 @ ARAPORT
AT1G67280.2 @ TAIR		 +2 6e-66 217 112/174 (64%) Symbols: | Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily protein | chr1:25188563-25190134 REVERSE LENGTH=262
BRACH PP3 Bradi3g14960.1.p +2 6e-85 268 133/174 (76%) pacid=32813745 transcript=Bradi3g14960.1 locus=Bradi3g14960 ID=Bradi3g14960.1.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 (1936 bp)

>BART1_0-u54453.044 1936 150831_barley_pseudomolecules
CCCATTTGTAACCTTGCTGGGCCAGGCCCATCCATGCCGACACGCGCCCACAGCCCATCT
GGCCAGCTTTAGTGGGAGGGATGCGCTTTTACAGCCTGTGAGGAGGTACCACGTCGCCAT
CAACGCAATCATAAGTATCGGTGCCGGACTCTCTTCTCCTTGGAAGCCTCTAGACTGAGC
TCCTCATCAGCGTGGGACGGATCTCTGCCGGATCGTATTTCCGGGTTTGATTTGTTTCAA
GCACTGCGTCTGGGGAGGATTTTTGGAAAACAGAGTGAATCATGGGAAAACCCCCGATCC
GGATTTTTTAGAACCACCCCCAATCCAACTATGCGTGCAGTTTGCTGGTTTTTATTTTTA
TTTTTACTTTGATTTAGCAGAACATCTTCCTGGCGTGGTAGCGGCTGGGCTGTGGGGGAG
GTGCTCATGGATGGATTGGGATCCTTTCGCCTCAGCGCAGGGATTTGGGGGCGCTACTTA
TTTATCCAGTCCTGCCGCTAGTTGCTGCTAATTTATCCAGTGATGCTGCTGTTACTCACT
ACTGTATTCTTTTGCTTTTAGGGAGGTGCAGTATTTAGTTAGGATAATTTTGATAGAGGA
GTGCTGTTGCTACTGTATTCTTTTGCTTTTACTTCCTTTGTTCCTAAATATAAGACCTTT
TAGAGATTTCACTATAGACTTAGTTTGGAGTGTAGATTCTTTTATTTTGCTCCGTATGGA
TTCTATAGTAGAATCTCTAAAAGGTTTTATATTTAGGAACGAAGGGAGTATACGATATAT
AGGAGAGAGTATAGACAATCTGCTGGAAAACTAGAAATTTTGAGAGGGAATCGTTTTGGA
CCATTGTCTATATATATATATATACACACACACACAAGCTGCTACAGATGCTCTTACCTC
TTTCCTTGCTATAATAATTGAGTGCATAACAACTCTTACAGGTGACAACAGGGATGGCTA
CCGGTAGCGAAGCTGGAAAGTCCGCCGAGGCCGTGCTGGAATGGCCTAAGCAGGACAAAA
AGAGGATGCTGCATGCTGTTTACCGTGTGGGAGATCTTGACAAAACCATTAAGTGTTACA
CAGAATGCTTTGGGATGAAGCTGCTGAGGAAAAGAGATGTCCCAGAAGAGAAGTACACCA
ATGCGTTTCTTGGGTTTGGACCTGAGGATACTAATTTTGCACTTGAGCTGACTTACAGTA
TGTTCATCGTCCACTCACAGTTGTTTCTAATGCAGCCGGTTTGATATTCTTGTTAATGTT
TGGGCAAAGTGTGTATCCACCTCAGTGAGAAGACTGGCAAACTAACGGGGCCTTGTTCTT
CTCTCTACATATGAACCGATAAACTATTTTGTGGGACTATACTGTCATTGTTTGCCACCT
CCTGTTGTGCTAATATGCTCGTTCTCGTTTGATAGATTATGGTGTTGACAAGTACGACAT
TGGAGCGGGCTTTGGACATTTTGCCATCGCAAATGAGGATGTGTACAAGCTGTCTGAGAC
AATTAAATCATCTGATTGTTGTAAGATCACTCGTGAACCTGGTCCTGTCAAGGGAGGGTC
CACTGTGATTGCCTTTGCACAAGACCCAGATGGTTACTTGTTTGAGCTTATCCAGAGGGG
TCCGACGCCTGAGCCTCTCTGTCAAGTTATGCTTCGTGTTGGTGACCTTGATCGGGCTAT
CATGTTCTACGAGAAGGCCCTTGGGATGAAGCTTCTGAGGAAGAAGGATGTGCCTCAGTA
TAAGGTACATCACATGACAATTGTTGTGTTGATGCCATTTGTCCTCTAAATTTTGATACA
CTGAGCATATTTATGATTTGTGCAGTACACCATTGCCATGATGGGCTATGCTGAGGAGGA
CAAGACCACTGTTCTGGAGTTGACATACAACTATGGTGTCACGGAATATAACAAGGGCAA
TGCATATGCTCAGGTA



Protein Sequence ( aa)

>BART1_0-u54453.044  150831_barley_pseudomolecules