Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u52907.017

ChromosomeExonStartStopDirection
chr7H1305303888305303247-
chr7H2305304132305303990-
chr7H3305304585305304317-
chr7H4305305059305304860-
chr7H5305306721305306483-


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
morexEMB2.751652.912121.5468
morexETI28.509225.085716.6433
morexLEA5.986011.575542.9559
morexEPI62.976432.061767.9592
morexROO000
morexROO201.223710.149284
morexNOD6.007329.841289.32206
morexRAC9.5715410.74819.66474
morexINF14.837816.406538.72889
morexINF26.0869112.59548.76111
morexCAR53.870124.64653.21316
morexCAR150.3749570.5733530
morexLEM9.976469.39729.44415
morexLOD2.632052.890634.36346
morexPAL4.9486714.10578.95429
morexSEN33.650626.168723.9567



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g29370.1 +3 6e-135 397 194/228 (85%) protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed
TAIR PP10 AT3G01480 @ ARAPORT
AT3G01480.1 @ TAIR		 +3 7e-119 356 167/228 (73%) Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437
BRACH PP3 Bradi3g34940.1.p +3 8e-140 409 201/228 (88%) pacid=32818759 transcript=Bradi3g34940.1 locus=Bradi3g34940 ID=Bradi3g34940.1.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 (1493 bp)

>BART1_0-u52907.017 1493 150831_barley_pseudomolecules
ACCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTATCCACATCCCGAAACCA
CCACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGCCCGCTTCACCGGAACCG
TACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCTGCTGCCGCCGCCCTT
CGCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCGCGCTCTCCGGCGAGA
ATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACTTACTGGTCTTG
CTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGTTGGACTTGAAG
AGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCAGAAAGAGC
TTCTCAATTATGTTGGAATCTGAGATCTTCCTGGGACATTGCATTTCTGCAGTGTAGAAG
AAGATATGGTCGATGGCTTCCCCTATGAAGTACCAGAAGAATACAACAATATGCCTCTTC
TTAAAGGAAGAGCTACTGTGGATATGACGGTTAAGATTAAAGATAATCCAAACGTAGAAG
ATTGTGTATTTCGGATAGTTCTGGATGGATATAATGCTCCTGTGACTTCTGGGAACTTCG
TAGATCTGGTGGAACGGAAGTTCTATGATGGCATGGAAATCCAAAGAGCTGATGGTTTTG
TTGTTCAGACGGGAGATCCTGAGGGGCCAGCCGACGGTTTTATTGATCCCAGTACTGGCA
AGAGTCGTACCATACCTCTTGAGATAATGGTTGATGGTGACAAGGCGCCTATATACGGTG
AAACACTTGAGGAACTTGGCCTTTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTG
GAACGATGGCAATGGCTAGAGAAGTAAGGCTCACCTAGACTCTTTAGTTTTAACATATCA
AGGATATGCCAAAATAATTATTACATCCTCCAGAAATATAAAGTGCACATGCTTCCCCAA
ATTTATCGTTGATCACGAATTTGTTCAGCAATATGTGATACAAAGTTGATACTCCCTCTG
TCCCATAATATAAGATGTTAATACAACCATATTGGTTCATTTATAGTTGGATTATTCTTC
GGAGGTTAAACTTCAATAACGGGTACGTCTTATGTTTCTGGATGGAGGGAGTAACATTTT
CTTAGTTGTAACCAAGGTTTTTTCTTCTTCTTCTTCTCGATAATGTTTTTTTGGATGGGC
TAGAAGAATTGGTTTCTGGAAAATATCAGTATTCAGACAAAATTTGAAATCATTTTGTTT
TGGGACAAAATATAAGTTTGCAGCCTGACCTACATATAGCTGCGCGTGTCCAAGCAGTTA
GTACAATTCATCTGTTCCTCAAAGTAAGTCTCGGGTTCGAGTTTTCTCTGCTGCACAACC
GCGAAGAGCCCACATGTGGAGAGAGAGGGAGAGAGAGATGGGAGGGAGAGAGA



Protein Sequence (150 aa)

>BART1_0-u52907.017 150 150831_barley_pseudomolecules
MVDGFPYEVPEEYNNMPLLKGRATVDMTVKIKDNPNVEDCVFRIVLDGYNAPVTSGNFVD
LVERKFYDGMEIQRADGFVVQTGDPEGPADGFIDPSTGKSRTIPLEIMVDGDKAPIYGET
LEELGLYKAQTKLPFNAFGTMAMAREVRLT