Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u56048.010

ChromosomeExonStartStopDirection
chr7H1620786624620786512+
chr7H2620787133620786727+
chr7H3620787384620787261+
chr7H4620788394620788034+
chr7H5620788805620788653+
chr7H6620789458620788920+


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
morexEMB0.50900200
morexETI02.25792.27256
morexLEA00.1835860
morexEPI2.800831.02422.48831
morexROO00.0000002255960
morexROO2000.74489
morexNOD0.2998421.694092.13475
morexRAC0.2853170.2384150.872051
morexINF10.3482590.2788491.04184
morexINF20.58082500.243613
morexCAR50.64043600.485892
morexCAR150.5752990.2075730
morexLEM0.8910530.9356070.524317
morexLOD1.015830.8208130.564773
morexPAL1.048160.5646981.07703
morexSEN0.2238151.26331.75591



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os06g46240.1 +2 1e-105 343 200/337 (59%) protein|BTB/POZ domain containing protein, putative, expressed
TAIR PP10 AT1G04390 @ ARAPORT
AT1G04390.1 @ TAIR		 +2 3e-67 233 124/315 (39%) Symbols: | BTB/POZ domain-containing protein | chr1:1179678-1183615 REVERSE LENGTH=849
BRACH PP3 Bradi1g32690.3.p +2 2e-167 496 248/338 (73%) pacid=32804376 transcript=Bradi1g32690.3 locus=Bradi1g32690 ID=Bradi1g32690.3.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 (1697 bp)

>BART1_0-u56048.010 1697 150831_barley_pseudomolecules
CTACGATCCTTCTCAAGAATGAAGTCTTAATGGCTAAGATTTGTGAGCTTGTGGGGACGT
CCCATCCGACTAGTACTAGGATTGAAGCGTTCAAACTCTGCCATGTTCTTTTGAGATCTT
CGAAGGGCTGTAGTCAGTTAATGACTTCACGTTGCCAGCCTATTGTTGAAGGCATAATCG
ATGCAATGCGTGCAAAGGATGATAAATTGTTAGTAACAGAGGGGTGTCGTACTGCACTGG
TGGTCCTCCGTTATGCTGGGAATCATCATCAATGCTTTTGGTCTAATGCCATTGATAAAG
TATTATATACCATTCTTACGGGCCGCTGCCTCTCCTCGCATCAAAGTGATCAAGTTTTGT
GCGATGATGAGCTATTTGATATGGTTTCCAAAAACTTCATGGATATACATCCATACGTCT
GGGATATACTTGGATATCTAGTGGTGCATTGCACTGACAAGCACCATCCTGTAAGGAAAG
GGAAAGGTCATAGCTTGCACGCACTGATATCTTGTGCTTGCTTGCTGGCCACAGATGTTA
TGCGCAAAAGCAGCCCCATGAAATTGTCCAAAGATGTGCAGGAGCCGGCTTTGAGAGCAG
TTCTGATGATGCTTCTCTCTCCCAATGGATATATTCAGTATGAGATGGTGAATCTCTAAA
TGCTCACACAGCCATCATATCAGCGAGGTGTCCTAAGCTGTTGCCATCTGTAAAATATCT
ACTTGGCAGCGATGAAAAAGTTAAAGATGAATGGGGAAAATCAGTGTACCGAGTTCAGAT
GTCTGATCGTGTAGATAGTCGCGCCTTGAAGAAGATTTTGGAGTACACATATACTGGTTT
TCTGATGGTAGGCGATGACGTTGTTAAACCAGTAAGGACACTTGCGAAGTATTGTCACCT
GAAACCATTGGCAGAAATGCTTCAGAAAGAGCAACCCAGATGGAACTCCGATTATGCCAG
ATATGATCTTAGTGCTGCACTTGGACCTGTTGAGCATTCATTCTCGGATATAATTTTGGA
GGCTAGGTCAAATGAGGAAATGAATTGTCACCATGGGTCGTGCCAATTGTCAACCCCGCA
CGTTCATAGCCATAAAATCGTGCTGACCATGAGCTGCGATTACCTCCGGGCATTATTTCG
ATCCGGGATGCATGAGAGCTTCTCCGACGTTATCAGGGTTCCGCTCGGGTGGCAAGCGCT
GGACAAGCTGGCTCACTGGTTCTACTCGGGCGAGCTGCCGAAAGCCGCCGTCGACTGCCG
ATGGAACAACCTGGGCAGCGACGAGCAGCGCGCCCACCTGAACGCCTACGCGGAGCTGTC
GTCCCTGTCCGAGTTCTGGTTCCTGGAGGGGGTGAAGGAGGAGAGCCTCGTCGCGGCGTC
GTCCCTCCTGGAGTCGAGCACGAGCGCCGCCGCGGTCGGGTTCGTCGCCTTCGCGGCCAG
CCTGGGCCAGTGGGAGATGGTGGACGCCGGCGTCCGGAGCGTGGCGCACCTGTACCCCCG
GCTCCGGGACTCCGGCGGGCTGGAGCGGCTCGACGACGAGCTGCTCAACATGCTGCGCAC
CGAGTACGTCCGCTACTCGCAGCACGGAGGCAGGCAGAGGTGACTGAATGATACGTACGT
ACATGGGGGACCTGAATGCGCGTCGCCGTGCGCTATGTAGATCCCCCCCCAGGGATTGCT
GCCATGCTTTCTTCACA



Protein Sequence (274 aa)

>BART1_0-u56048.010 274 150831_barley_pseudomolecules
MSDRVDSRALKKILEYTYTGFLMVGDDVVKPVRTLAKYCHLKPLAEMLQKEQPRWNSDYA
RYDLSAALGPVEHSFSDIILEARSNEEMNCHHGSCQLSTPHVHSHKIVLTMSCDYLRALF
RSGMHESFSDVIRVPLGWQALDKLAHWFYSGELPKAAVDCRWNNLGSDEQRAHLNAYAEL
SSLSEFWFLEGVKEESLVAASSLLESSTSAAAVGFVAFAASLGQWEMVDAGVRSVAHLYP
RLRDSGGLERLDDELLNMLRTEYVRYSQHGGRQR