Exon Structure of BART1_0-u21354.012

ChromosomeExonStartStopDirection
chr3H1460557509460556869-
chr3H2460558032460557695-
chr3H3460558373460558101-
chr3H4460558898460558793-
chr3H5460559814460559714-
chr3H6460560666460560479-
chr3H7460562773460562502-


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
morexLEA000
morexEPI000
morexROO000
morexROO2000
morexNOD0.30075100
morexRAC000
morexINF1000
morexINF2000
morexCAR5000
morexCAR15000
morexLEM000
morexLOD000
morexPAL000
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os01g47540.1 +1 4e-148 437 261/439 (59%) protein|NLI interacting factor-like phosphatase, putative, expressed
TAIR PP10 AT5G46410 @ ARAPORT
AT5G46410.1 @ TAIR
+1 2e-70 235 106/159 (67%) Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453
BRACH PP3 Bradi2g45880.1.p +1 1e-144 427 216/258 (84%) pacid=32780084 transcript=Bradi2g45880.1 locus=Bradi2g45880 ID=Bradi2g45880.1.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 (1919 bp)

>BART1_0-u21354.012 1919 150831_barley_pseudomolecules
GGGCCCGGACCGCGCGCGCGGCCCACCGGCCAGCGAGCCGGTCGAAGACGAGTGGAGACG
GGCTATACCAAATCGGAGACCGAGCCCTCATAATTCTCCTCTCCCCTCTTGTGATTCCGG
TGCGTCTTCCCCTCCTCTCTGCCTGCCTGCGCGCACCGGTCTCCCCCCCCCCCCCTCCCT
CTCTTCCTCCGTCCGCCTCCGCCTCCGGGAGAGGCCGAGAGAGAGGGAGAGAGGGAGGAC
GCGCCGGAGCTACCCGCGCCAGCATCGCCTCGACAGTTTTGGCAGTCTGAACTGCTGATC
AAGATGCCAGCACTGAGAATGAAGAGGAAGTTTGATGATGACATTTTCGGGAGTGAGTTT
GACATCAAATCCATGAAATCGGTGAAAATCTCGCCTTCCCAAGTTGATGAGTTCGAGCAG
GCATTTGTGTTAAACTCGTCTTACAAGGACCCTCAGGATGAGCCTGAGCCGATAACTCAA
CTAGCTGTCCAGGATATTAGGGTTACAGAATTTTCCGGTTTGCATGCTGTACTTGGAGGA
ACATCCGTTGCTCTGCTGAAGGATTTAATATCTGAAACTGTGGTTCCACCAAATTTGGAA
CCTGATTCTTTATCTAATAATGATGATGGCAAATCTCAGTCAAATGTAGTGAACACCGGT
GATAAAGACATGAGTGGCATATGCGGAGTATTTCCACTTAATGAGAGCACCGTGGAAGGT
TGCATTGGCAATGAACCATGCCCATCACAAGGGGATATGTGCTTTAATAACTTTGGTGGG
GAGTGCTTTAGCCATTCTGAGGTTTTAGAGTGGTTTAATCCATATATGGATGAGTCTGAT
GTACCTAATCTTATTGGTTATACCGAGTTGAGCTCAGATGCTGCTTGTGTATCTAAAGAG
CAAGGGGCCAGGAAGGTCACTCTTGTGCTTGATTTGGATGAAACCCTTGTTCATTCAACT
CTGGAGCACTGTGATGATGCAGATTTTTCTTTTCCAGTGTCCTTTGGTCTGAAAGAACAT
GTGGTATATGTGAGGAAGAGACCACATTTGCATATGTTCCTCCAGAAGATGGCTGAGATG
TTTGACGTTGTTATATTCACAGCCAGCCAAAGTGTTTATGCAGACCAGCTGCTTGACAGG
CTTGATCCAGAGAACACATTGTTCTCGAAGCGTTTTTTCCGCGAGTCATGTGTATTTACG
GAAAGTGGCTACACAAAAGATCTGACTGTTATTGGAGTTGACCTTGCAAAGGTTGCCATA
ATTGACAACACTCCGCAGGTTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGAGAGC
TGGTATAATGACCCCTTTGATGAGGGATTATCTCAGCTGATTCCATTCCTGGAGACACTT
GCTGTTGCTGATGACGTCCGACCCATAATTGCCAAGAGGTTTGGCAACTAAAAGGATAAT
GGCTGAGGTTTTCCAGCAGGTGTTAGGAAGAGTTTGTTGGTTACTCACATAGAGGGACAA
GAACTTACATGACACATTGACCGAGCTAGTTGAGACTTGCCTTTTTCTTAATTTTATTTA
CATGGGTTTCATAGGATCAAGAATTTTGGTGGCAGAGCTATTTCTCGTGAATTGTAAATA
TCCTCAAACACTGTTATAGAATTTTGTACATAAAAACTGTTAGAAATGAAAGCGAAACTC
TCTAAAATTTCTTCTTTGCCACATTGTCATTGTCTATGTTCAGCTGTCTACTATTCAGTG
TTTTTTCTGTTTCATGATGTCAACTACTCCCTCTGTCCTACAATGTAAAACGTTTTTGCA
AGCTAACATATTTGCAAGTTACATTGTGGAACGGAGGGAGCAGAATTGATTTTGTAACAC
AACTGTCTGATATCTTCTGCTAAGATAAATTATCATGTTTGACTCTTGTCTATTCATAC



Protein Sequence (375 aa)

>BART1_0-u21354.012 375 150831_barley_pseudomolecules
MPALRMKRKFDDDIFGSEFDIKSMKSVKISPSQVDEFEQAFVLNSSYKDPQDEPEPITQL
AVQDIRVTEFSGLHAVLGGTSVALLKDLISETVVPPNLEPDSLSNNDDGKSQSNVVNTGD
KDMSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEWFNPYMDESDV
PNLIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSFPVSFGLKEHV
VYVRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKRFFRESCVFTE
SGYTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLSQLIPFLETLA
VADDVRPIIAKRFGN