Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u39384.002

ChromosomeExonStartStopDirection
chr5H1610332596610332277+
chr5H2610333705610333396+
chr5H3610335480610335042+
chr5H4610335745610335608+
chr5H5610335929610335826+
chr5H6610336235610336014+
chr5H7610337060610336566+
chr5H8610338426610337999+
chr5H9610338746610338653+
chr5H10610339174610338820+


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
morexEMB2.239952.802753.30794
morexETI3.796024.487915.03837
morexLEA2.040881.980383.79973
morexEPI3.407044.34694.06585
morexROO1.458552.374620.742211
morexROO23.282263.313264.04294
morexNOD1.166982.145843.35302
morexRAC6.72716.216775.27243
morexINF15.831884.717586.44206
morexINF25.385153.039552.36982
morexCAR54.797875.199251.93189
morexCAR151.351490.7571130.766549
morexLEM5.180513.952014.21639
morexLOD4.699634.977562.75963
morexPAL2.726714.531144.26492
morexSEN4.601155.523223.25979



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os05g22370.2 +2 0.0 687 385/525 (73%) protein|N-acetylglucosaminyl transferase component, putative, expressed
TAIR PP10 AT3G57170 @ ARAPORT
AT3G57170.1 @ TAIR		 +2 1e-120 379 235/534 (44%) Symbols: | N-acetylglucosaminyl transferase component family protein / Gpi1 family protein | chr3:21159620-21162259 REVERSE LENGTH=560
BRACH PP3 Bradi1g06945.1.p +2 0.0 800 440/532 (83%) pacid=32803293 transcript=Bradi1g06945.1 locus=Bradi1g06945 ID=Bradi1g06945.1.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 (2905 bp)

>BART1_0-u39384.002 2905 150831_barley_pseudomolecules
CCGATCCCTTCGCCCCTCCCACGCATCTCCCGACCGCCTCCGCCCCCCGCCGCCCGCCGC
CGCCCGCTCCCGGCTCCCGCCTCTCGCTGTCCGGCTGCTTCCGCGCGAGCGCGAGCTCGA
CCACGCCGTTCCCCTACTGCGCGCAGCAGTAGTCCCTGCCGGCATCCCCCCGTGGCCTCC
ACGCAGCCGCCGGGTCGCTACCGCTCTCGCTGACTCGTGCAGGCACCGCGCAGGGGCTGC
TGGCCGCTGCCTACTGCTCGGCTTTGGACAGGGGAAGCCCGGAGCCGTATCCCCACAGGG
TATTTTTTTAATAGTTTTTGGCCACAGAAGATCAATCTCTGTTGAGTAAATAGGAATTTG
GGCCTGTGATTCTGTGGTGCGGGTGCAGTTCCAGAACCTTGTGGGTCCAGCTGAACTCCC
TATGCCCCACATTTAGTCTGCCCCTGCATGGACCGGTGCAGGATCTGGTGGCCGCGCCAG
CAACATCAGTCTGAATTGGAGTCCGTCTCTGCCAGATATCTCCTTTTTGGATGGCTCTTC
CCCCATGCGGGGTCACTCGACATTGTTGTCGCGGCGTTCGTCTCCGAGGGAGAGATCTTG
CGGTCTTTCCCCAACCTCGACACTTTCCAGACTGCTATCCTTTCCTCAAATAAAACGATG
CCAACAGTGCTTCAAGAATCTGCAGCATTTACCATCCTTGGGGATTGTGTTGTACATCTT
CCAAGAGATTTTGAAGGCTGCTGTGTTAAGCAAAAATATCACCTGTTGCGGGCTCAAGTT
GTTCAGGCAGAGCATGCTGACACAAACCAAGACAGTTCTATTGCATTGGGTGGATCATTG
GGAAGCGAAGATCAAGACCAAAGTGAGAATAATGGAAAATGGGAATGTGATTGTAGTGTA
TTAGACGGTTTTCTGGATAAGTGCAAGAAGTCAGTAGTGAAACGTGGCGACTGGGTGCAC
TTCTGCTGTAAGCCTGAAAAGAGCTTGAAAAGCAATCTGAATCAAATTCCAGTGCTTCAT
CATTTGTATCTTGATGACCAGAAGGTTGAAATTAATCATTGCCACGTATGTCATACTTTA
TGATGTTCCTGTTGCTGGTAGAAACCATTTCTCCCTGGGCGAGGATGCACCTTATAGGAT
GAAGTCCCCCTTCAAAAGGCCAAATTGGATAAATAATCTGCAAAAGAAACGACCATTTCT
TGATTTGGATCCGATTGTGTTGGCGCTTAATTGTTCAAATTCAGCTAGATTGTCAGTTGC
TTGGAAAACTACTAATAACAGCTCTGCGGCTCATTTCTTGTTTGCAACTGTGATTGATGC
CTTAGTTCAAGTGGCACAACATTTCACAGGAATAATTTTGGCTTCAGTATCAACTATTAT
CTACATCTTCATTCAGCTGTTCCGAAAATGTTTGAGCCATGTCTCTGAGCACTTTATATT
ACAAAAGGTTTTCAGACACTCATGGAAAAACATGCATCTCCGTTGTTCCCAAATTCTTTA
TTGGCCGATTTTCCTCCAAGATACTTCCCTAAGCTCCTATGTGAATGTCGAATATGCACA
CAAAGCTGCAATCCAGAAGCATGCTTTATGGTCAAATATTATCATGGATCTTCTGATGGG
TTTCATCCTTGGAGCAGCACTATTGTTGAACATGGAGACTATTTGCTCTTGGATTTTTGC
TCTTCTTCACTACATGACAGATGCTGTCTTGAGATCTGGTTGTGTGTGGCTGATGGGTGT
TCCAGCAGGCTTTAAGCTGAATACTGAGTTAGCAGAGCTTCTAGGCATGATTTCTTTGAA
TGCAATCCAAATTTATTCTACCCTTTGGTTCATGGTGGGAGGCTTCCTTAGGCATATAAT
TCAAGGCCTTGCATTTTCTGGAATTATTTTAGGTTTCACGGTTCCTGTTTCAATCTTCAT
TGACATTATCCAGCTTGCGACATTGCATGTTACCATGCTTCAGTGGTTAATCTCCTTAAT
ATATTCAAGGCAGATTCAGACAGTGACATCATTGTGGCGTCTTTTCAGAGGGCGCAAGTG
GAATCCTCTTAGGCAGAGATTAGATAGCTATGACTACACGGTTGAACAACATGTGGTTGG
TTCGCTGTTGTTTACACCAGTCTTGCTTCTTCTACCCACAGCTTCTATATTCTACATATT
TTTCTCTATCTTGAGCAGCACAATCATCTGTTTGTGTATAGTGTTGGAAACTGCAATATG
TATAATCCACTCTACTCCTTATGCTGCGGTAATTCTATGGGTGACAAGGAGGCAAAGATT
TCCTGCTGGATTAATGTTCCTTCCTATGTCATCGTCATCTGTATCTACTGATGATGATGC
TCTATCAGTTGAATATCATTCAACCAGTTTATCTGGCGAAAGGAAAACAGACGAACTCAT
CCATGTACATTCAGTACCACTAGTTTCAGAACTTAACTGTAACTATAACACCCTCGGACA
AGTAATCGGGCCACATTACCAGAAAGTTTTCAACGGGATCGCTCTCCCCTTCTGCAAACA
ACTGGCACATGGAATCCTTAGGGGCACAAGGATACCTACAACACTGCATCTGCCCTCTTC
TCCACTGCCCTGGATGCATATTGGCATTAGAGAATACTGGATGCTTTGCCGTCGCGCGAC
CAAGTGGGGAAGGAATTAAAAGTTCTCCGCTTATGATTAACTATTAGTCGCTCAGAGAAT
TTTTCTTAGTTGCCACCGTTTTGTAGTGGATGTTTTGCTTTAGTTGCCTAACACAGTAAC
AATTGTTGGTAGTTGCCAAGATGTTGCGTCCTGGACTGCTTTTGTAGTACTGATACCATT
TGGAGTTGAGGAATCGACACGTAGGGAAAATTAATGTGTTTGTTACAAGCATACAAGTTC
TTCACATTCACGTAAATGCGTTGCG



Protein Sequence (541 aa)

>BART1_0-u39384.002 541 150831_barley_pseudomolecules
MTRRLKLIIATYVILYDVPVAGRNHFSLGEDAPYRMKSPFKRPNWINNLQKKRPFLDLDP
IVLALNCSNSARLSVAWKTTNNSSAAHFLFATVIDALVQVAQHFTGIILASVSTIIYIFI
QLFRKCLSHVSEHFILQKVFRHSWKNMHLRCSQILYWPIFLQDTSLSSYVNVEYAHKAAI
QKHALWSNIIMDLLMGFILGAALLLNMETICSWIFALLHYMTDAVLRSGCVWLMGVPAGF
KLNTELAELLGMISLNAIQIYSTLWFMVGGFLRHIIQGLAFSGIILGFTVPVSIFIDIIQ
LATLHVTMLQWLISLIYSRQIQTVTSLWRLFRGRKWNPLRQRLDSYDYTVEQHVVGSLLF
TPVLLLLPTASIFYIFFSILSSTIICLCIVLETAICIIHSTPYAAVILWVTRRQRFPAGL
MFLPMSSSSVSTDDDALSVEYHSTSLSGERKTDELIHVHSVPLVSELNCNYNTLGQVIGP
HYQKVFNGIALPFCKQLAHGILRGTRIPTTLHLPSSPLPWMHIGIREYWMLCRRATKWGR
N