Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u18453.001

ChromosomeExonStartStopDirection
chr3H14755724947556979+
chr3H24755873247558463+
chr3H34755920647559088+
chr3H44755949547559319+
chr3H54755984947559802+
chr3H64756008447560020+
chr3H74756051147560173+


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
morexEMB2.4597300
morexETI1.46860.6718281.27702
morexLEA0.47534900
morexEPI0.87162400
morexROO1.3166200
morexROO21.762430.6839591.9475
morexNOD0.4268432.222940.10247
morexRAC2.298321.478281.27949
morexINF10.00596040.000006100752.33275
morexINF2001.56642
morexCAR502.753660.881904
morexCAR150.21316800
morexLEM2.556780.292261.17363
morexLOD1.751971.392051.64817
morexPAL0.6335622.084441.27724
morexSEN0.8429531.00980.661244



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os10g41730.1 +2 2e-94 283 143/179 (80%) protein|expressed protein
TAIR PP10 AT5G43822 @ ARAPORT
AT5G43822.1 @ TAIR		 +2 2e-42 148 77/180 (43%) Symbols: | Pentatricopeptide repeat (PPR) superfamily protein | chr5:17620830-17621868 FORWARD LENGTH=195
BRACH PP3 Bradi3g33790.2.p +2 7e-109 319 156/179 (87%) pacid=32818824 transcript=Bradi3g33790.2 locus=Bradi3g33790 ID=Bradi3g33790.2.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 (1289 bp)

>BART1_0-u18453.001 1289 150831_barley_pseudomolecules
CTCATTATATGAAATTTGGGGAATTCGATTATTATTTTTGCCACGGTTTACTTTGCATTT
TGACAATTTGCCACTGGTCGCATTGTAATTGCCTTTTAGCCACTATTCACATTGGGGATT
AGACTTGGACGTTTGCCCTCTTACAGGTCGGGCCCGCTTGAAATCCCGGTTTTACCCCCG
GCCAGCCTCCCTGCTCTTCCTCGAGGCGACACACCGGTGGACGGCGACGGTGGTAATCGA
CGGCGGAGGCTCCCTCCCGGCAACAACGACAGTTGACCTGAGCCCAGCCTATCATACGTG
CCTCGTTCTCAGCAGCTGCAGACGTTCCCTAAGAAAATAGGCAAGCACTGCCGAGAAATC
GATCGAGGACCGGGGTTGCTAAGGGAAACGAGATGAGCGGTTGATCGGGATGGAGGTTGT
GGTGCGGAAGATGCAGCAGCGGGTGAGGAAGGCACGGGAGGAGACGGAGCGATGGGATGA
CCTCAACTCCCGCCTCCTGTCCCAGTTCTCCAATGCTGCCGCCATCATCACCCGCCTTCT
GGTACTTGGAGATGCTAAAAATCATGGTATCCTGCGGTGTGTGCCCAACATCAGGGAGGA
TCTCTTGGGGGCACAGATGAGGAGCCTGGAGCTCATATTTGTTTCAATGAGGGAGACTCT
GGAGGAGTTCAGTGGCATTGCCAAAGGTTTGAGCAAGGTACTGCGCGATGCTAATCAGAT
GGTGAGGGGTGGATTGGCACTCACTGGGAAACAATTGCAGTTACAAGTGGGAATTTTGCC
AACTATTGCAGACTGCTTGGGTGGGCTACAAACACTGTCTGAAATGCACCAGGCTGAGTA
TGCGCTAAAATCATCAATCATCTCTTTGTTGACATGGAAAAGCAGTTCAAGTGAAATCGC
TGCAATGCGTCAACTCTTGGTAGACCAACCAAACATACCGAAAGATGAAGTGCAATCTGT
CTTCGACATTATATTTGCAGATGAAATTTGCTAAGTTGAGCATGCATCCTACTATTGGAA
GCCCTATTGCCAAGACATGTTGAAGCAACTGTATTTTGATCTACTCCTTCCGTTCATAAA
TATAAGCTTTTCTGACCTTTCTGTGAATCGGATATATATAGACACGTTTTAGTGTCTTTG
TTCACTCATTTCACTCGTGTATGTAGTCCATATTGAAATATCCAAACCATGGTATATTTG
TGAACGGAGGGAGTACTTTCTTATCTGAACAAAGTGTTGAGTAAATAGGCAATTTTCCGA
GTACATTAATCCACAAAATAATAACTAGC



Protein Sequence (194 aa)

>BART1_0-u18453.001 194 150831_barley_pseudomolecules
MEVVVRKMQQRVRKAREETERWDDLNSRLLSQFSNAAAIITRLLVLGDAKNHGILRCVPN
IREDLLGAQMRSLELIFVSMRETLEEFSGIAKGLSKVLRDANQMVRGGLALTGKQLQLQV
GILPTIADCLGGLQTLSEMHQAEYALKSSIISLLTWKSSSSEIAAMRQLLVDQPNIPKDE
VQSVFDIIFADEIC