Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u05042.011

ChromosomeExonStartStopDirection
chr1H1501617123501616705-
chr1H2501617385501617276-
chr1H3501618080501617967-
chr1H4501618569501618447-
chr1H5501619642501618955-


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
morexEMB16.80039.210948.00888
morexETI57.009344.670250.3055
morexLEA12.20584.8593711.0482
morexEPI34.517922.964232.4237
morexROO5.229126.848691.59278
morexROO24.751863.828352.99418
morexNOD11.991140.279613.631
morexRAC47.208846.180244.1787
morexINF15.242476.468325.60057
morexINF29.9887710.24727.71733
morexCAR513.79110.19947.97866
morexCAR150.5998720.5894551.0663
morexLEM37.353421.866743.8069
morexLOD51.253139.434151.3734
morexPAL38.17644.773446.981
morexSEN27.210325.002225.3447



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g06280.7 +1 1e-62 201 119/126 (94%) protein|LSD1 zinc finger domain containing protein, expressed
TAIR PP10 AT1G32540 @ ARAPORT
AT1G32540.3 @ TAIR		 +1 2e-54 179 105/125 (84%) Symbols: LOL1 | lsd one like 1 | chr1:11768043-11769591 FORWARD LENGTH=154
BRACH PP3 Bradi3g16400.3.p +1 6e-63 202 120/126 (95%) pacid=32812785 transcript=Bradi3g16400.3 locus=Bradi3g16400 ID=Bradi3g16400.3.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 (1454 bp)

>BART1_0-u05042.011 1454 150831_barley_pseudomolecules
CCCACATGGCATAGGGGATAAGAAAGAGAATCCACGTTCCCAGCCACAGTGCCGTGCTTT
ACCTTATCTGCCGCATTCCAACTCATGTTGTTATTCTGAGCAAAACTCGACTCGCTCGCT
CGTCTCGACATCTGCACCGGATCGAGCTCAGCAAAGCCCGAGCCGGAGGCGCTCGTCTGC
CCGGGGAGCGGCGCCATGCGGGTCCGCCTCTTCCTCTGAACCGGGCAAGCGCGAGCCGCC
TTCTTCCTCCGGCTCGGCGTCGGCGGCGACGACGAGCGTCGGTGGCGGCATAGCACGGTC
CAGCGACGAGCAGGTGATTCGGCGCCCAGCTCTGCTGCCGCGACGAGCGCTGAAGGCGGC
TCTCCGTCTGTCTAATTTGACGCTCGATTTGCCTCAGGCCTGCACGGCTCAACTGTACCT
GGCCTTGCTATCATCTTGATGATTCATACTACACCTTTTCCCCGGTAGAATCGCGGTGTT
CTCACCGGAATCTCCCACAATTTATGCAGGATTTCATGTAGAGGAGGGCAATCTGTTCTC
ATCCCCTCGACTTCCAGCAGAGCGTGCGAAGTCTCGTCCGCAGCAACGACGACGCCGGCT
CAGGCAGCCGCGGGCACGGCAATGCCGGTTCCTCTTGCCCCTTACCCAACTCCTCCTGCG
CCCTTCACGCCACCCGCTCCCAATGCAGCAATTTCAGGGGCTCAAAGCCAACTTGTCTGC
TCTGGGTGCCGGAATCTGCTCATGTATCCTGCCGGCGCAACGTCGGTATGCTGCGCGGTT
TGCAGTACCGTGACCGCTGTTCCGGCTCCTGGGACCGAGATGGCGCAGCTAGTTTGCGGA
GGATGCCACACTCTTCTGATGTACATACGTGGTGCCACAAGTGTACAGTGTTCTTGCTGC
CACACTGTCAACCTGGCAATGGAAGCGAATCAGGTTGCGCATGTAAACTGTGGGAGTTGC
CGAATGCTGCTCATGTACCAGTACGGCGCAAGGTCCGTCAAATGTGCAGTCTGCAGTTTC
GTGACATCAGTTGGGGCATCATCGGGTGCAGAGCAGAAGCCCAGCAACTGAAATCCTGCA
AGTTCATTACGAAGGCAGCTTCCCGAAATAAGAATGCTTTGAGTGCACATGTATAGAGTT
CTTCCCAGAAGCAACCTTTTCCTCCCCTCTCCATTTCTCCCTTCGTTGGACCTGGCGAGC
TTGCGGAATAAACAAGAGTTTTTGGTAATACATAGTTGCTCAAAATTCGTCGAATCATCT
GTGTAACTGGGTCAGACAGATACATGAACCCACCATGTTTATGTTCAAATTTAGCTTCTT
TTACTTGTGTTCTATATATTTCAGATTTTTTTTCTTGTGGTCATCGGAAGAATTTCTTCA
GATGTGCTTTGCCGTGCGTATTCTTGAACCGATCTATATCACTGCAGACATGATCATGAA
CATGAACAGTTTAC



Protein Sequence (122 aa)

>BART1_0-u05042.011 122 150831_barley_pseudomolecules
MLRGLQYRDRCSGSWDRDGAASLRRMPHSSDVHTWCHKCTVFLLPHCQPGNGSESGCACK
LWELPNAAHVPVRRKVRQMCSLQFRDISWGIIGCRAEAQQLKSCKFITKAASRNKNALSA
HV