Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u53703.117

ChromosomeExonStartStopDirection
chr7H1385862468385861839-
chr7H2385863972385862587-
chr7H3385864284385864078-
chr7H4385865991385865930-
chr7H5385866338385866227-
chr7H6385866611385866409-
chr7H7385867084385867000-
chr7H8385867306385867200-
chr7H9385867543385867389-
chr7H10385871248385871179-
chr7H11385872206385872147-


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
morexETI00.04086180.0189963
morexLEA0.064791400.0374739
morexEPI0.62004500
morexROO00.03054860
morexROO2000
morexNOD0.099105900.0657642
morexRAC0.693750.3548080.364741
morexINF10.042076100
morexINF2000
morexCAR51.718730.6790230.716062
morexCAR15000
morexLEM0.05006230.05470470
morexLOD000
morexPAL0.020955900
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g06110.2 +3 0.0 702 442/619 (71%) protein|MYB family transcription factor, putative, expressed
TAIR PP10 AT2G46830 @ ARAPORT
AT2G46830.1 @ TAIR		 +3 4e-38 152 71/91 (78%) Symbols: CCA1 | circadian clock associated 1 | chr2:19246005-19248717 FORWARD LENGTH=608
BRACH PP3 Bradi3g16515.1.p +3 0.0 753 468/612 (76%) 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 (3077 bp)

>BART1_0-u53703.117 3077 150831_barley_pseudomolecules
GAGGGCGGGCTGGGCGGGCGACGTGGCCACCGGGGTCAGCTTGCTTGCTGCTCGCCCGAG
GCATACTATGTTGTCCTTAAATAACGTGGTTCAGGTTGTGGGAGATAAACTCATGGATGC
TCCTTCAAAGTAACTTTCAGGTGTAGGAAGTGTTAAGGGGATACATAATCGGTTTTGAGC
TGCGAGGCCCTGCATTTCTTCTGCCTGCTGTTTGATTCACGGCCCACTCTTTTCCTTCTA
TCCATTCAAGCAAAGTACTGGAATTTCTGAGCCCAATTTATTCAGTTTTCATTATGAGCT
GTGATTCAAAGCTGGAGGTTGATAGGACCTCAGCACTAATAACGTGGATTTTGTTGCTCT
GGCAGGTCATGGGATTTGTTTGTCCTTAGCAGAGTTGAAGATAAAGAGAGGAAGGCTAAA
CTCTGCTGATCCGGTTCATGCGAGCAATGAGCCAACTGCAGTAGAGGTTTACAGTAGAGA
GGTTTAGGGGGAGGTATGAGATACTACTCGCGTCAGGTCCAGCGTTTGGCTGGAGACACA
GAAGGAGGAGTGCTGTTGTTTGTAGACGCCCTCAACTCCAAGTAACAAAGCGACCAGTTG
TCAGCACTTCCTTTTGTTTTCGCATTTCCCTGGAATTGGAGATGGAGATAAATTCTTCGG
GTGAGGAAACGGTGATAAAGGTGCGAAAGCCGTACACAATAACAAAACAGCGGGAGCGGT
GGACTGAGGCAGAGCACAAACGGTTCCTTGAAGCCCTCAAACTGTATGGCAGAGCTTGGC
AGCGCATAGAAGAGCATGTTGGGACAAAGACGGCCGTGCAAATCAGAAGCCATGCTCAGA
AGTTCTTCACAAAGTTGGAAAAGGAAGCTATCAACAATGGTACTTCTCCAGGACAAGCTC
ATGATATAGACATACCTCCACCACGGCCTAAAAGAAAACCTAACTGTCCATATCCTCGAA
AAGGTTGTCTCAGCTCTGAGACACCCACCAGAGAAGTTCCAAAATCAAGTGTTAGCTTGA
GCAATAGCAATTCACAAATGGAAAGCAATGGAACTCTTCAGGTCACCAGCACTCAGAAAC
TTCAAAGGAAGGAGTTGTCTGGAAACGGCAGTTGCTCAGAAGTTATTAATATCTTTAGAG
AAGCACCATCTGCCTCATTTTCTTCCTCTAACAAGAGCTCTTCAAATCATGGTGTCTCTG
GGGGAATTGAACCGACTAAAACAGAAATCAAAGATATGGCAGCCATGGAAAGGAAATCTA
CTTCCGTTGATGTGGCGAAGGATGTAAAAGATATTAATGACCAGGAAATGGAAAGGAACA
ACAGAGTCCACATCAGTTCTAAATATGACCGTTCTCATGAAGATTGTTTGGATAGCTCAA
TGAAACACATGCAGTTGAAGCCAAATACTGTGGAGACAACATACACGGGTCAACATGTTG
CAAGTGCTCCACTCTACCAAATGAATAAGACTGGGGCAACTGGCACTCCAGACCCTGGAA
CTGAAGGAAGTCATCCTGATCAAACGAATGATCAAGTGGGAGGAGCTAATGGAAGTATGG
ACTGCATCCATCCAACACTTCCCGTGGATCTAAAATTTGGCAGCAGCTCCACAGCGCAGC
CCTTTCCCCACAACTATTCAGGCTTTGCACCAACGATGCAATGCCAGTGCAACCAAGATG
CCTACAGGTCATCTGTTGATATGTCGTCCACCTTCTCCAACATGCTCGTTTCCACATTGT
TATCAAACCCCACAGTACATGCAGCTGCAAGGCTTGCAGCATCATACTGGCCAGCAGCAG
ACAGCAACATCCCTGTCGATCCAAATCAAGGAATTTTTGCTCAGAATGCTCAAGGAAGAC
ATATTGTTTCTCCTCCAAGCATGGCTTCTGTGGTAGCAGCTACAGTTGCTGCGGCTTCGG
CATGGTGGGCAACACAAGGTCTTCTCCCTCTTTTTGCTCCCCCCATGGCTTTTCCATTTG
TCCCAGTTCCTACCGCTTCCTTTCCCACAGCGGATGTCCAGCGAGCTACAGAGAACTGCC
CAGTGGACAACGCACCAAAGGAATGCCAAGTAGCTCAGGGGCAAGGTCAACCTGAAGCTA
TGATAGTTGTAGCATCTTCTGGGTCCGGCGAGAGTGGAAAAGGAGAGGTGTGTCCTCACA
CTGAGTTAAATATATCTCTGGCTGATAAAGCTGAGACAACACCTGCCACAGGAGCTGAAA
CAAGTGATGCTTTGGGCAACAAGAAGAAGCAGGATCGCTCTTCATGTGGTTCCAACACAC
CATCAAGTAGTGATGTAGAGGCAGAACATGTTCCTGAGAACCAAGATCAAGCTAACGACA
AGACACAGCAAGCATGTTGCAGTAATTCTTCAGCTGGTGACATGAACCATCGCAGGTTTA
GGAACATTTCAAGCACGAATGATTCATGGAAGGAAGTTTCCGAGGAGTAGAGGAAAGCTT
CCCCAAAGCTTTTCTCCTCCACAAGCAGAAGGATTGAAGGTGGTTCCCAGAGGGGAGCAA
GATGAAGCTACTACGGTGACGGTCGACCTCAACAAGAGTGCTGCAGTTATGGACCATGAA
CTTGACACATTGGTTGGGCCAAGAGCTTCCTTTCCCATTGAATTGTCACACCTGAATATG
AAATCCCGCCGGACAGGCTTCAAACCTTACAAGAGGTGCTCGGTGGAAGCAAAGGAGAAT
AGGGTGCCGGCTGCTGACGAGGTTGGTACCAAAAGGATTCGCCTTGACAGCGAACCCTCC
ACGTGATTTACTTCCCACGACATGATTACCAGCCTGCACAAGTAGTGTATTTTCAAGAAA
TTGCGGTATTTACATCTAAGCTACTATAGGACTTGCCAGTCCTTGCAATGCAGTGTTTCA
CAGAACTCAATTTGTTATGTGTTGTATGTTAATGCTTGCCGAGCAGCCCTTTTAGACTGT
CAATTAAGCATTAAGCACCTATGCATGCTACTTTATTGGTAAAAAAGTAATTCTGCTTAT
TTTTCTGTGATGAAGGATAATACTTGTAATTTTGCTTCATTTTACTGGATCATGTAGATT
TAATTCCCGAAGGGAGA



Protein Sequence (602 aa)

>BART1_0-u53703.117 602 150831_barley_pseudomolecules
MEINSSGEETVIKVRKPYTITKQRERWTEAEHKRFLEALKLYGRAWQRIEEHVGTKTAVQ
IRSHAQKFFTKLEKEAINNGTSPGQAHDIDIPPPRPKRKPNCPYPRKGCLSSETPTREVP
KSSVSLSNSNSQMESNGTLQVTSTQKLQRKELSGNGSCSEVINIFREAPSASFSSSNKSS
SNHGVSGGIEPTKTEIKDMAAMERKSTSVDVAKDVKDINDQEMERNNRVHISSKYDRSHE
DCLDSSMKHMQLKPNTVETTYTGQHVASAPLYQMNKTGATGTPDPGTEGSHPDQTNDQVG
GANGSMDCIHPTLPVDLKFGSSSTAQPFPHNYSGFAPTMQCQCNQDAYRSSVDMSSTFSN
MLVSTLLSNPTVHAAARLAASYWPAADSNIPVDPNQGIFAQNAQGRHIVSPPSMASVVAA
TVAAASAWWATQGLLPLFAPPMAFPFVPVPTASFPTADVQRATENCPVDNAPKECQVAQG
QGQPEAMIVVASSGSGESGKGEVCPHTELNISLADKAETTPATGAETSDALGNKKKQDRS
SCGSNTPSSSDVEAEHVPENQDQANDKTQQACCSNSSAGDMNHRRFRNISSTNDSWKEVS
EE