Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u53703.125

ChromosomeExonStartStopDirection
chr7H1385865757385865021-
chr7H2385865991385865930-
chr7H3385866338385866227-
chr7H4385866611385866409-
chr7H5385867084385867000-
chr7H6385867226385867200-
chr7H7385867533385867389-
chr7H8385872191385872147-


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
morexEMB0.7708412.383793.88785
morexETI2.625915.726121.53649
morexLEA20.868224.57019.5969
morexEPI0.2451110.6458690.158563
morexROO3.570918.000533.15696
morexROO24.045232.945222.28974
morexNOD35.497421.610138.765
morexRAC0.1327830.1058550.173129
morexINF115.54715.245110.9177
morexINF217.65989.1152210.7412
morexCAR54.30760.2455480.73477
morexCAR150.3702190.3201370.687342
morexLEM10.365711.83951.11941
morexLOD005.68957
morexPAL0.4844840.2578230.488982
morexSEN2.097591.170111.4383



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g06110.2 +2 3e-38 149 68/72 (94%) protein|MYB family transcription factor, putative, expressed
TAIR PP10 AT1G01060 @ ARAPORT
AT1G01060.4 @ TAIR		 +2 5e-34 135 60/72 (83%) Symbols: LHY, LHY1 | Homeodomain-like superfamily protein | chr1:33992-37061 REVERSE LENGTH=644
BRACH PP3 Bradi3g16515.1.p +2 2e-39 152 70/72 (97%) pacid=32817815 transcript=Bradi3g16515.1 locus=Bradi3g16515 ID=Bradi3g16515.1.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 (1416 bp)

>BART1_0-u53703.125 1416 150831_barley_pseudomolecules
GGGCGACGTGGCCACCGGGGTCAGCTTGCTTGCTGCTCGCCCGAGGTGTAGGAAGTGTTA
AGGGGATACATAATCGGTTTTGAGCTGCGAGGCCCTGCATTTCTTCTGCCTGCTGTTTGA
TTCACGGCCCACTCTTTTCCTTCTATCCATTCAAGCAAAGTACTGGAATTTCTGAGCCCA
ATTTATTCAGGTCATGGGATTTGTTTGTCCTTAGCAGAGTTGAAGATAAAGAGAGGAAGG
CTAAACTCTGCTGATCCGGTTCATGCGAGCAATGAGCCAACTGCAGTAGAGGTTTACAGT
AGAGAGGTTTAGGGGGAGGTATGAGATACTACTCGCGTCAGGTCCAGCGTTTGGCTGGAG
ACACAGAAGGAGGAGTGCTGTTGTTTGTAGACGCCCTCAACTCCAAGTAACAAAGCGACC
AGTTGTCAGCACTTCCTTTTGTTTTCGCATTTCCCTGGAATTGGAGATGGAGATAAATTC
TTCGGGTGAGGAAACGGTGATAAAGGTGCGAAAGCCGTACACAATAACAAAACAGCGGGA
GCGGTGGACTGAGGCAGAGCACAAACGGTTCCTTGAAGCCCTCAAACTGTATGGCAGAGC
TTGGCAGCGCATAGAAGAGCATGTTGGGACAAAGACGGCCGTGCAAATCAGAAGCCATGC
TCAGAAGTTCTTCACAAAGTTTGTTCTGCAGTGCTGAGCATGATGAAAGATTCGTTTCCT
TTGAATATCATGAGAACCATGCTTTATCTAATTGTTGCCCTGCTGATTGATTAAAAGATC
AAATTAAAGCATGTTAAAATGGATGAAACATGCTAGAAAGTCTTTGCTGATTGTAAGCAA
TGAGTAATGTTGCAGAGAAGATGATGTTGAACAACTCTGATTCTCTCATTGATTCATTTT
ACATATCCATGCTGTTATTGAACATACATATGACTAAGAAAACATTATGGTACTAGTTAA
ATTTACATAGAGAGTCAATATAATACATAATGTGAAATAGGATATCTGAATGCACTCAAG
TGAACTACAGGAAATTCCTTAGGAATTGTATGGTAAATATGCTAACATTTGTTGCATTTC
ATTATAGCCCCCATCAACGTAGGTAAACACTTTATCTAACATGTTTCACTATCAACATTG
TGTAAATGAGTCCATTTCATTTTCTAAATCATGATATTTCTTCCGCAGAAGTACACAATG
GCATGAACAAAATTTATCTTCTTTCTCCCCTTTTTGTCCTTGCTCTCTTCTCTGCTTTCT
GTTCTTTGCTGCTTGTCCTATTTTTTTAGGGGCTGCATACAGCCACATGGTGGAGGCTAC
ATTGCCAATTTGCCATCATGTTGTAACATGCAACAGACTGTTGCCTTGTTAGGATTGCAG
CCTCATCCTCTCAGAGGTTTCTTTGCCAGACCCATG



Protein Sequence (106 aa)

>BART1_0-u53703.125 106 150831_barley_pseudomolecules
MASDLHGRLCPNMLFYALPSSAIQFEGFKEPFVLCLSPPLPLFCYCVRLSHLYHRFLTRR
IYLHLQFQGNAKTKGSADNWSLCYLELRASTNNSTPPSVSPAKRWT