Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u57237.005

ChromosomeExonStartStopDirection
chr7H1653255206653253680-
chr7H2653255658653255311-
chr7H3653255899653255838-
chr7H4653256103653255992-
chr7H5653256324653256237-
chr7H6653257566653256663-


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
morexEMB0.7599253.391383.59291
morexETI8.7448110.46533.20974
morexLEA5.8914510.77287.14812
morexEPI0.6903140.4524240.323269
morexROO8.529265.239373.11768
morexROO22.724333.427163.6619
morexNOD19.72658.6210923.399
morexRAC0.00001812310.3135680.0686401
morexINF13.845361.914921.37601
morexINF27.772323.402065.07152
morexCAR50.3255710.09790380.194747
morexCAR150.068673600.0124522
morexLEM8.618427.719270.891652
morexLOD0.2519490.8094191.23221
morexPAL0.04950311.508181.9062
morexSEN25.149414.107314.0727



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os06g51260.1 +3 3e-114 361 266/459 (58%) protein|MYB family transcription factor, putative, expressed
TAIR PP10 AT5G37260 @ ARAPORT
AT5G37260.1 @ TAIR		 +3 1e-33 131 100/235 (43%) Symbols: RVE2, CIR1 | Homeodomain-like superfamily protein | chr5:14751344-14752972 REVERSE LENGTH=287
BRACH PP3 Bradi1g29680.1.p +3 1e-149 452 285/452 (63%) pacid=32806206 transcript=Bradi1g29680.1 locus=Bradi1g29680 ID=Bradi1g29680.1.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 (3041 bp)

>BART1_0-u57237.005 3041 150831_barley_pseudomolecules
CCTTCCTCCTCCTCCTCCGCCTCCGCTTCCTCCTCCTCCGTCTCCCCCGGCAGCACGTGC
GCGCCCCGGCGGCCTCCTCTCTTAGCTGCGCCGCTCGCCGGAGCGTCTCTTCTCGTTTGG
CTTCTTTTCTTTGGGTCAGTTTCCTTGGGCCACGGTGTCTCGCCGGCCGGCTCCGGTCGC
CGAGAGGGAGGGTGTTTTTTCGGTGCTTCCTGGGCGATCCCGGCGAGAGACGCTTCTGTC
CCAGCCTCCGCCGCAGGCCGCCCGCTTCTGTCCCCGCCTTTGCCGCCCGCCGTCTGCTTC
TGTCCCCGCCTTCGCCGTCCGCCGTCTGCCGTCTGCTTCGTTCGATCTCGGTGACGGGGA
CGCCGAGATTCGGACCTCCGCCGGGGAACGGCTCATGGCTTCCATGGCGCTCGCGGAGGT
AAAGATCCCTCCTTTTTTTTCTTCTCCGCGCGCGTTCCCTGGCCGTTCCTCGCCTGCTGC
AAAATTTTACTTGCGCAGTAAAAAACATTTTTCCTGGGAGGGATTTTACCTTGTATATTT
CTGTTCTTGATGGCTTCTCCGTTGGATAATTTGCCAAAATGAGTTTTTTATTTATGTATT
TACTTCTGCATCTACCACCAGTAGTCTCTAGTTTTTTTTTTTTCAACATTTTTGGAGGGA
TTTTTATCTTGCGAGAAATGGCCTGTTTCTAGACACTTCTGTTTTGGGAGGATACAGACC
ACACCACCACAATATCTTTAGAGGCTTCGAGAGCTAGAAATGGGGAGGACACAACTTACA
TACATATTTCATACCAAACATGAGAGCTAGAGATGGGGATTATTTTAGTTAGAGCCACCT
ACCAAACATGCCAGGAGGCCTGATTGCCAAATCCAGAAACACTTTATGGTGCTTTCCATC
CTAGGAAACGGATGCACTGGATTCATCCAGATTGCCGAACGGCAAAGGGTTATCGGTGGA
TGTTGCAATGCAACCCAATGAGGAGGGGATGGCCTAGGAAGCCATACACGATCACAAAGC
AGCGGGAGAAGTGGACGGACGAAGAGCACGAGAAGTTCCTGGAGGCGCTGAAGCTGTATG
GCCGGTCCTGGCGTCAGATACAAGAACACATTGGCACAAAGACCGCTGTCCAAATCCGAA
GCCATGCCCAGAAGTTTTTCTCCAAGGTGGTGCGCGAACCCGGAGCTAAAATTGAGATCG
AGATCCCTCCCCCTAGGCCAAAGAGGAAGCCGCTGCATCCATATCCTCGCAAGCGTGCGG
ACTCCTGCAACGGGGCAAACCCAGCAAATGGACCATCCAAGCTTGCTCAAATTTCATCAT
CTTCTGGTTCTGACCAAGAGAATGGTTCTCCCGTGTCAGTGTTGTCTGCAATGCAGTCGG
ATGCTTTTGGATCATCGATGTCAAACCCGTCATCTCGCAGTACTTCCCCAGAGTCGTCAG
ATGAGGAGAATAATGTTCCTCCAATGGTCAGCAGAGAGGAAGGTCAACAAACAGGGATAA
ATCAATCCCACAAGGAGGCTGATCAGGAAAACAAAGATACGGGTACCTCCGAAGAGGATT
CTTCTGATGAGGTGCAGGTAACAAGCGTGAAGCTGTTCGGGAAGACGGTCGTCATCCCAG
ACCCGAGGAAAAGGTGCTCCCCGGATCCAGGCTCAGGGCATGAAAACGGAGGGCAAACCT
CACATTCCTCTAACAAAGGAACATCACAAGCCCCACTGGCTGTAGAGATTCCAACACATA
CAAAGGGAGAACAAATCTCACAATCCTCTAACAAGGCAACATCACAAGCCCCATTGGCTG
TAGAGGTTCCGACGTATACAAAGGGAGAGCAAATCTCACAATTCTCTAACAAGGCAACTT
CACAAGCCCCACTGGCTGTAGAAATTCCAGCATTTGCTGCGCCGCCAAGTGGGTGGGTTC
TTCCGTACAATTCGTTCCCTCTACATTTTGGGGAATCGGCGGAAGCCAGAATCACCCCTT
TACACATGTGGTGGCCATACTATGGGTTCCCTATCAGCCACCCTGGAGGGCTGAGTGTAG
TGCCGCACAACGAAGCTACTGATGAGAGCGAAGCTGCAAAGAGCCCTCTGGTTGAATCAA
GCTCGAAGAGCCTTCCTGTTGAATCAAGCTCGGACTCCGATGACAATGCTGAGACAACAG
CCAACAAGGAGTGGAAAGTGCTCGAGTCGCTCGGGACGGCACAGGTCCCTCGGTCAGCTT
CAAGTTTTCAGCTAAAACCAAGCGAGAACTCGGCTTTTGTGAGAGTGAAGCCGATCATAG
GCAGCGGAGAAGAGCCGGCGAGGGGGTTTGTGCCATACAAAAGATGTAGAGTTGAATGAC
GAAACCGGGGATCTTCTTCCCCGTGTCTAATTTAACTATGAACCCTAGGAGGAGCCTGTT
CCACATATTCCTTTGCTCCGGTGTATTCTTAGGTTTTACTCGCACACAGAGATTGGCGGT
GGTCTGGCCCAGGAAATGCACGTTGTTTCCTGCTTGGGCCTTGTAATGAGCAGGGCACAG
GTGGTTGTTGTAAGTGCTGTAGGATAAAAGCAGGAGGTTTTGTAGGGATGCCAATTCTCT
GTCTGTCTCATGTTGTTGATGTAAAAGCAAAGAATTTTTGTGTCACCATTGTTGATTCTT
AATGGAAATCGACTTCTCTGAATGAATGAAGCTGGCATGTTTGGTTGTTGCGGGCTGTTG
TGTTGGTAAGAGTCTGAAGATGCTGGTGCCTTTTGTCCCGAGCATGCAGGCAGAGCTTGG
CCGTGTTCTTCAGACTGGAGTATGGAAGGAAACATTGTTCATCATTGGTAGCAATTGCAT
GCCTTTGAAGGTTTCCAGCCATGGCTGCTAAATTCAATTCCATCAAGTGGGACATTATGA
TATTTGTCTGAACATTGCAGTTGCCGAACATTCCAATGTTTGCCGCAACTGTTGGCTAGC
AATGTCTGACCATTCAATTCTGTCAAGCAAACAGCAGAGGCTGCTTAGTGACTGGGAATT
GTACGGGACATAAATCGTGAGTTACTGGGATAAACATTAAG



Protein Sequence (475 aa)

>BART1_0-u57237.005 475 150831_barley_pseudomolecules
MHWIHPDCRTAKGYRWMLQCNPMRRGWPRKPYTITKQREKWTDEEHEKFLEALKLYGRSW
RQIQEHIGTKTAVQIRSHAQKFFSKVVREPGAKIEIEIPPPRPKRKPLHPYPRKRADSCN
GANPANGPSKLAQISSSSGSDQENGSPVSVLSAMQSDAFGSSMSNPSSRSTSPESSDEEN
NVPPMVSREEGQQTGINQSHKEADQENKDTGTSEEDSSDEVQVTSVKLFGKTVVIPDPRK
RCSPDPGSGHENGGQTSHSSNKGTSQAPLAVEIPTHTKGEQISQSSNKATSQAPLAVEVP
TYTKGEQISQFSNKATSQAPLAVEIPAFAAPPSGWVLPYNSFPLHFGESAEARITPLHMW
WPYYGFPISHPGGLSVVPHNEATDESEAAKSPLVESSSKSLPVESSSDSDDNAETTANKE
WKVLESLGTAQVPRSASSFQLKPSENSAFVRVKPIIGSGEEPARGFVPYKRCRVE