Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u52907.005

ChromosomeExonStartStopDirection
chr7H1305302829305302249-
chr7H2305304132305303990-
chr7H3305304585305304317-
chr7H4305305059305304860-
chr7H5305305504305305214-
chr7H6305306736305306483-


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
morexEMB000
morexETI000
morexLEA00.0000001036860
morexEPI000
morexROO000
morexROO20.14262400.455544
morexNOD000
morexRAC00.3938560
morexINF101.471850
morexINF2000
morexCAR50.68396300
morexCAR1500.001158590
morexLEM000
morexLOD00.6571650.246558
morexPAL000
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g29370.1 +3 0.0 663 332/415 (80%) protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed
TAIR PP10 AT3G01480 @ ARAPORT
AT3G01480.1 @ TAIR		 +3 0.0 570 286/415 (69%) Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437
BRACH PP3 Bradi3g34940.1.p +3 0.0 700 351/415 (85%) 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 (1738 bp)

>BART1_0-u52907.005 1738 150831_barley_pseudomolecules
CCTCCACCAATCGCAACCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTATC
CACATCCCGAAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGCCC
GCTTCACCGGAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCT
GCTGCCGCCGCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCG
CGCTCTCCGGCGAGAAAGGAAACTCATTTAGCTGGAACAAATGTGCAATTTCTATAGCAT
TGTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGCCCATGCTTTTCCGC
TCGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCCCATTAAAGATCCAG
GGGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCGTGAAGTTCAAAAAC
CGTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGCGTTGGATTCAGTTG
AAAGAAATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACTTACTG
GTCTTGCTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGTTGGAC
TTGAAGAGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCAGA
AAGAGCTTCTCAATTATGTTGGAATCTGAGATCTTCCTGGGACATTGCATTTCTGCAGTG
TAGAAGAAGATATGGTCGATGGCTTCCCCTATGAAGTACCAGAAGAATACAACAATATGC
CTCTTCTTAAAGGAAGAGCTACTGTGGATATGACGGTTAAGATTAAAGATAATCCAAACG
TAGAAGATTGTGTATTTCGGATAGTTCTGGATGGATATAATGCTCCTGTGACTTCTGGGA
ACTTCGTAGATCTGGTGGAACGGAAGTTCTATGATGGCATGGAAATCCAAAGAGCTGATG
GTTTTGTTGTTCAGACGGGAGATCCTGAGGGGCCAGCCGACGGTTTTATTGATCCCAGTA
CTGGCAAGAGTCGTACCATACCTCTTGAGATAATGGTTGATGGTGACAAGGCGCCTATAT
ACGGTGAAACACTTGAGGAATTTGATGACAACTCCGCTTCTAGTCAAGTCTTCTGGCTCT
TGAAAGAAAGTGAGTTGACGCCAAGTAATTCCAATATATTGGATGGGCGGTATTCGGTGT
TTGGATACGTAACCGAGAATGAGGATTTCTTGGCTGATCTCAAGGTGGGGGACGTTATTG
AATCAATCCAGGTTGTCTCAGGCCTAGACAATCTTGTCAACCCGAGCTACAAGATTGTAG
GGTAGCATGTTTCCGTATATAAGAATTCCTTGACATGCAATTATTTTACGGTATTAAAAC
CGATGTCTTGTGCTGGAATTTCTAACCTTGTACCATTGTTTTGTTTTCCTTTTTGTGCTT
ACATATACTCCCTCCGATCCTAAATATAAGTCTTTTTAGAGATTTCACTAAAGGATTACA
TATGATGCAAAATGAGTGAATCTACACTTTAAATTATGTCTACATACATCCGTATGTAGT
TTTCTAGTGGAACCTTTAAAAAGACATGTATTTAGAAACGGAGGGAGTAGTTTTGCATTA
TGTGGAATTCGATAGATAATGGAAAGAACAAAGTTATTTACCGTAATCAGTTTCCTCG



Protein Sequence (238 aa)

>BART1_0-u52907.005 238 150831_barley_pseudomolecules
MAPYFVRPYPHPETTTSSSASIVFPTTNARFTGTVPPPNRMAAALASSRCCRRPSLLNSD
RRRRSVVRCALSGEKGNSFSWNKCAISIALSVGLITCPPTFGWSAHAFPLEPVIPDISVL
ISGPPIKDPGALLRYALPIDNKAIREVQKPLEDITDSLKVSGVRALDSVERNVRQASRAL
TNGRSLILTGLAESKRENGEKILDKLAVGLEELQRIIEDRNRNAVAPKQKELLNYVGI