Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u16377.004

ChromosomeExonStartStopDirection
chr2H1752588225752587985+
chr2H2752588451752588346+
chr2H3752588933752588832+
chr2H4752589073752589014+
chr2H5752589262752589184+
chr2H6752589517752589364+
chr2H7752589725752589602+
chr2H8752590240752590063+
chr2H9752590438752590410+
chr2H10752590913752590765+
chr2H11752591094752590992+
chr2H12752591357752591262+
chr2H13752591496752591444+
chr2H14752591736752591613+
chr2H15752592021752591959+
chr2H16752592164752592108+
chr2H17752592439752592278+
chr2H18752593033752592963+
chr2H19752593214752593121+
chr2H20752593620752593490+
chr2H21752593809752593729+
chr2H22752594122752594017+
chr2H23752594972752594437+


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
morexEMB37.1844121.608101.007
morexETI00.2473530
morexLEA73.857310.342616.8126
morexEPI0.36387400.208602
morexROO09.545074.33859
morexROO20.1751420.5301070.0884889
morexNOD8.333281.535120.349627
morexRAC161.016163.27171.481
morexINF1149.97485.023677.1805
morexINF295.8104187.906162.051
morexCAR51.693490.8662360.665619
morexCAR150.67786200.319031
morexLEM0.2862620.5335320.906144
morexLOD1.110897.363290.00686932
morexPAL1.541382.501541.19382
morexSEN0.3212760.564980.0789401



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os12g16650.1 +3 0.0 1023 527/799 (66%) protein|Cyclopropane-fatty-acyl-phospholipid synthase, putative, expressed
TAIR PP10 AT3G23510 @ ARAPORT
AT3G23510.1 @ TAIR		 +3 0.0 899 454/796 (57%) Symbols: | Cyclopropane-fatty-acyl-phospholipid synthase | chr3:8428071-8433159 FORWARD LENGTH=867
BRACH PP3 Bradi5g02490.1.p +3 0.0 1097 557/813 (69%) pacid=32809829 transcript=Bradi5g02490.1 locus=Bradi5g02490 ID=Bradi5g02490.1.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 (2899 bp)

>BART1_0-u16377.004 2899 150831_barley_pseudomolecules
AGTTTTTTCTGTAGGTAACATATCCGCAAATGATGGAATGGTTAGAAGGGCTCGGGGTTG
AGATGGAGAGGTCAGACATGTCTTTCTCTGTGAGCACACAATCTAAAGGAGGCGGTGGAG
GATGTGAGTGGGGAAATGGTAACGGTATATCGAGCCTCTTGGCGCAAAAAACCAACATAC
TGAAACCCAGTTTTTGGCACATGGTCTGTGAGATACTCAAGTTCAAGAACAATGCCCTGA
CGTACCTGGAGGACCATGAACGTAACCCTGATCTGGATCGTAATGAGACACTGGGGCAGT
TCATTCAGTCGCATGGATATTCCCTATCGTTTCAAGAGGCTTATCTTATTCCAGTCTGCA
CAGGCACGTGGTCATGTTCATCACAAGATGTTTTGAGCCTGTCTGCTTTCTTGGTGCTGT
CATTTTGCCGTAACCATGGCCTTCTTCAGCTGTTTCGTCACTCCCAGTTGCCCACTGTCA
AGCCTAGTTCGCAGTCCTATGTAAACAAGGTAAAAGGAGAATTGGAGAGCATTGGCTGTC
GAATTAAAACCAGTTGTCGGGTCAAATCTGTTTCAAGTCTTGATGGAGCAGCTGGCTACA
GAGTCTTGGAGAATGATGGTTCAGTGGAAACATACGACAGTGTCATCTTTGGGGTCCATG
CATCCAATGCTCTCAAATTATTAGGAGCTGAAGCATCACATCACGAACGAAGAATTCTAG
GTGCCTGTCAGTATGTCCAAAGAGATATATACCTCCACTGCGATCAAAATTTGATGCCCC
GAAAATCAGCAGCATGGAGTGCGTGGAATTTCCTTGGGACAACTAGTAGGGGTTTTTCTA
TTACTTACTGGCTAAACCAAATTCAGAAATTTGAATCGGGCAGGCCTTTCCTGGTGACAC
TCAATCCCCCTTGTGTTCCGGATCATGTACTACTTAAATGGAATACAAGCCTTCCTGTTC
CGTCTGTGGCCGCGGCGAAGGCTTATCTTCAGCTTGATCAGATCCAGGGAAAGAGGGGAA
TATGGTTCTGTGGGGCATATCAAGGTCATGGCTTCCATGAAGACGGATTAAAGTCTGGGA
AAGCAGCGGCTCAAGGTTTGCTTGGAAAGAAATGTGAGCTTCTGCTGAACCCAAAGAATA
TGATTCCATCATGGATTGAGGCTGGGGCACGCCTTCTAGTTGCAAGATTTTTCAACCAAT
ACATATCCATTGGTAACTTGATATTGGTCGAAGAAGGAGGTAGTGTGTTCAGCTTTGGTA
AAGCTTGCGACAAATGCCGTGTAAAATCTGTCATCCAAGTTCATGACCCCTTGTTCTATT
GGAAGGTTGCAATAGAAGGAGGCATGGGCTTGGCAGAATCCTATATTGACGGTTGTTTCT
CTGTTCTTGACAAGAGAGAAGGCCTTCTAAATCTTATCCTGATTCTCATTGCTAACAGAG
ACGAGCGTAGGAACCGCCGCATTGCCAGAAAAGGGTTTTGGTTGTCACCCTTCCATGTAA
TAGCTCAATTGGCATATGCTAAACACTTTTTGCGCCAGGCAACAAGGAAGAACACTGCAA
CACAAACTCGTCGAAACATCTCTGAGCACTATGATCTTAGTAACGACTTTTTTTCGCTTT
TTCTGGATAAATCGATGACTTACTCCTGTGCAGTTTTCAAGGAGAACGAAAGCTTAGAAG
CAGCCCAACAACGTAAACTTAGCCTTCTAATCAACAAGGCTAAAGTCAAGAGGGAGCATC
ATGTTCTTGATATCGGTAGCGGCTGGGGAAGTTTAGCAATAGAAACAGTTAAGCAAACTG
GCTGCAAATACACTGGAGTCACTTTATCGGCGGAGCAGCATAAATACGCAGAAAGAAAAG
TAAGAGAAGCTGGCTTAGAGGACCGCATAAATTTTCTGCTGTGCGACTACCGTAAAATAC
CACCTTTTAAGTATGACGCAATCATAAGCTGTGGTATGATTGAACATGTTGGCCATGAAT
ACATGGACGAATTTTTTGCTTGCTGTGAGTCTTACTTGGCTGAAGATGGGATATTGGTCC
TCCAGTTCATCTCAGTTCCAGAGGAACGGTACGAGCAATACAGAAAAAGGCCAGACTTCA
TAAAAGAGTACATATTCCCTGGTGGTTGCCTTCCTTCTTTGGCCCGTATAATGTCTGCCA
TGACCGCGTCATCAAGCATAGAGCATGTCGAGAATATTGGGCCCAATTACTACACAACTC
TGATGCACTGGAGGGACAACTTCATGGCCAACAGAGACCAAGTTTTGGCCCTGGGCTTTG
ATGAAAGGTTCCTCCGTATATGGGAGTACTACCTCATATTCTCTGCGGCTGGTTTCAAGT
CACGAGCAATTGGAGATTACCAGGTTGTTTTCTCTCGTCCAGGCAATCGTCGTCTAGGCC
AGCCTTGATGGCCGGAGACAACATATCCTTCTCCGTTCAGCGGCCGAATGGTTACTTGTC
AGTACCGTACGAGATTTTAATAAGTCAGTCCTGGAATGATTCGCTCATGCCGGAATCCTA
CTCAGGTGGTTTGGTGATCTATCTTGTTGTTTAACCATGCAATGGTTAGTTTTTCGTGGG
AGTGTCTTGTTATCCATCAATTAACTAGAATTTTGAGAATTGTATGTAAGGAACTGGTTT
GTTTGCTTTAATATCTATGAGGAAGAGTTGATGTCCTTGCTTGTAGTTTCTCATGATCTG
ATCTATTCGGTGTTTGCCGTTTTCAATGCTTGCTTGCGAAGAGAATCAATATATGTTCCT
GAGTATCATGTTTCACCAATGACTGAGGAGGACTTTTGCTAACAGAAAAGATGAGATCTC
TTTGGCTAGTTTTTGTTAAAGGGGATGGCAGCAGTAAATACCTTCGTCCTTCCTCCATGT
TGGAATCAAGAAGTTAGTG



Protein Sequence (792 aa)

>BART1_0-u16377.004 792 150831_barley_pseudomolecules
MMEWLEGLGVEMERSDMSFSVSTQSKGGGGGCEWGNGNGISSLLAQKTNILKPSFWHMVC
EILKFKNNALTYLEDHERNPDLDRNETLGQFIQSHGYSLSFQEAYLIPVCTGTWSCSSQD
VLSLSAFLVLSFCRNHGLLQLFRHSQLPTVKPSSQSYVNKVKGELESIGCRIKTSCRVKS
VSSLDGAAGYRVLENDGSVETYDSVIFGVHASNALKLLGAEASHHERRILGACQYVQRDI
YLHCDQNLMPRKSAAWSAWNFLGTTSRGFSITYWLNQIQKFESGRPFLVTLNPPCVPDHV
LLKWNTSLPVPSVAAAKAYLQLDQIQGKRGIWFCGAYQGHGFHEDGLKSGKAAAQGLLGK
KCELLLNPKNMIPSWIEAGARLLVARFFNQYISIGNLILVEEGGSVFSFGKACDKCRVKS
VIQVHDPLFYWKVAIEGGMGLAESYIDGCFSVLDKREGLLNLILILIANRDERRNRRIAR
KGFWLSPFHVIAQLAYAKHFLRQATRKNTATQTRRNISEHYDLSNDFFSLFLDKSMTYSC
AVFKENESLEAAQQRKLSLLINKAKVKREHHVLDIGSGWGSLAIETVKQTGCKYTGVTLS
AEQHKYAERKVREAGLEDRINFLLCDYRKIPPFKYDAIISCGMIEHVGHEYMDEFFACCE
SYLAEDGILVLQFISVPEERYEQYRKRPDFIKEYIFPGGCLPSLARIMSAMTASSSIEHV
ENIGPNYYTTLMHWRDNFMANRDQVLALGFDERFLRIWEYYLIFSAAGFKSRAIGDYQVV
FSRPGNRRLGQP