Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u39718.001

ChromosomeExonStartStopDirection
chr5H1615390084615388469-
chr5H2615390389615390163-
chr5H3615390625615390551-
chr5H4615390934615390818-
chr5H5615392416615392324-
chr5H6615392680615392630-
chr5H7615394192615392820-
chr5H8615394470615394336-
chr5H9615394733615394575-
chr5H10615397673615395625-


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
morexEMB0.23710200
morexETI000
morexLEA0.00015621100.253622
morexEPI0.7677340.09330270
morexROO0.1738130.1424680.140647
morexROO20.02831460.000000004874430
morexNOD0.0000001139680.1877080.000000222263
morexRAC0.00017513100.0533949
morexINF10.1596780.2217350.00000000538303
morexINF20.000000013808600.00000000239437
morexCAR5000.0126851
morexCAR150.00002498380.0000000003652460
morexLEM00.2110520.000000162603
morexLOD0.0076917300.0000850256
morexPAL0.20784800.150231
morexSEN0.1561460.03086690



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g35150.1 +3 6e-109 330 165/225 (73%) protein|splicing factor U2AF, putative, expressed
TAIR PP10 AT1G10320 @ ARAPORT
AT1G10320.1 @ TAIR		 +3 7e-66 239 109/143 (76%) Symbols: | Zinc finger C-x8-C-x5-C-x3-H type family protein | chr1:3384164-3388373 REVERSE LENGTH=757
BRACH PP3 Bradi3g45900.1.p +3 1e-158 395 197/242 (81%) pacid=32822846 transcript=Bradi3g45900.1 locus=Bradi3g45900 ID=Bradi3g45900.1.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 (5895 bp)

>BART1_0-u39718.001 5895 150831_barley_pseudomolecules
TACTCTGTGACCAATATCTGCTCAAACAGAACTTTCACCATATCAATCCCACGCTTAACC
CTCAGTAGATTCCTCGTATGGCTCCCCGGCTGCCTAACAGTGCCCTTCTGAATGTCAAGC
TCAACCATGGAGGGCAATGTCGAAATCGTCTTGGATGCCTCCAGTAGATCATTAACCTGC
AGCCACGTAAGACAAAGTAGTCAGACAAGATCGCCAAACAAAAGCCTTGAAAAAGGGGAT
GCTACGATTAACTAGGTAATCGATGGCCTGGCCCCAAGACAGTCATCAAACACGCATGAG
TATATGAGGTTTTTGTAACAAGATAGCATGTGAAATCCGAAATGGCTGAACATTTTGTTT
GCTATATAAGCAGTAGTACTAAAATAAGCGCAGAAGTAGATTGGAACTTCCAACACCTCA
AGCATACATCAGAGCAAGCATCTCACAATACTAGCTGAAATAGATAACCAGATCCTTATG
TGCACACAATAGTTCCTGGCTTGATCAGGTTGAAAATTTATGAGACCGTCTCGCCCTAAA
CAAGTCCAGGGGATCACCACAATTACCTTAAAAACAGAGATGTATACAATTAAAGGAGCA
GTACTAACTCAAGTGCAGAAGTGAATAGGATTCCCTACCCCTGAAGCGTTCACCGCAACA
ACCATAGCACACAGTTAGCAAAATTAGACAGTCCTAACCCGATGAAGCACCCAATAATTG
CTGCTTGATCCAGTTCAGAAATTGACAGAACATTTCACCGAAACATCCTATCCTCAAACT
GAAGTAGATCAACACAATCACCTCACCACATGGAGTATGCACAGCTATGCAGGGTAGCAA
TCGAAAACGAATTCAAACAGAACTTGCCAAGTCGATCTGGCTGAGAATTTCAGATCATTT
CGCCCCAAACCTTTCTCAGCTTCACACAAACCAATCAATGCCCCGGAAATCACCAGAAAT
TTTACCACACACAAGCACAACGAAGCAGCATACCGAACAACCGACTCGCCCTAAGCAGCC
GAGGGCCCCAACCGGGGGAGGAATCGCGGGACGCGAGCTAGAGCAGAGCAGGTCGCGGGG
GAGGGGAGGGGGGCAGAGCAGGGGCGGGGCTTGCCTTGGCGACGTAGTCCATCTCGGCGA
ACTTGAAGGCGATGCCGAGGCAGCCGAAGAGGACGGAGACGTTGGAGCAGGCGCGGGAGA
AGTCCCCCGCCGCCATCGCGGGCTGCTGCTGCTGCTTGGCGATGGCCGCGAGCTGCTCGA
ACGACGCGCCGATCCGCCGCAGCGGCTTGTCCGCCTCGTTGGACCCCATCGGCCGGTCTC
CGCCGCCGCCGGCGTCCGCCGCGCTTGGAGGTTCTAGAGCTTGGGTGGCGTCGGCGTCTG
GGCTGATGAGCTGTGCTCTTTTTTTTTCCCTCTCCCCCCCTCTCTCTGTGGTGAGATGCC
TCGTTCTTTTGGTGGTTGTACGCGTTGTTGTGTGAAGAGGGCGACGGCGATGACGGCGAG
GTTTTGGGGTCGGCCGGTCCTCTGATGGGCCTGAAAGTGGGCTCGGGCCATCTTGGACCA
TTCTCTTCTAGGCCCATGCGATTCTAAGAAAAACAAAATGCAAGGCCCATGAAACGTAAG
TACGTTTATTTGGGGGCCTTCGATAGACAAAGCCCTAAAACACTTTTCTGAAAGAAAAAA
AACCAAGAGGCCGAGGGGGTGGATCGAGGAGCTTCCGTCGGAGCGCCCATGTCCACGGCG
GCCGCTGATCTCCCGGCGGCGTCTACGAGGAGCGAGAGGCGGAAGGAGCGGAAGAAGCAG
CGCCGCCGGCGCGCGCGTAGGGAGGCGGCGGCGGCCGCGCGGGCTGCGGCAGAGGCGCTC
GCCGCCGACCCAGAGGAGGGGCGCCGCCTCCGAGAGCTCGAGGAGGCCGAGGCCGACGCG
TCCGACCGCGCCCGCCGCGCCTTTGAGGACGCCGAGCGCCGATGGCTCGAGAAGGCCGCC
TCGCGTGCCGCCGAGGAGGCGGCTGCGGAAGAAGAGGCGTGTGCCGCCGAAGCTTCCACG
CGCGATAAGTATAACGATGACCACCGAGACGAGACAGAAGAAGATGGGGAGTGGGAGTAT
GTTGAAGATGGACCAGCAGAGATCATATGGCAAGGAAATGAGATCATTGTGAAGAAGAAA
AAGGTCAAAATACCAAAGAAGGCAGAGGCTAAACCACTAAGTCAAGAGGAAGAGAGACCT
ACATCAAATCCGCTGCCACCTCAGTCTGTAGCTGTTGATTCTCAGAGGAGAGAACCTTCC
TTGTCTGCTCGAGAACTACTTGAGAAAGTTGCTCAAGAGACTCCAAATTTCGGAACTGAA
CAGGATAAGGCCCATTGCCCATTTTACCTCAAAACAGCAGCTTGCCGCTTTGGAGTGCGC
TGCAGCAGAGTTCACTTCTACCCTGACAAATCATGCACATTGCTCATGAAAAACATGTAT
AATGGTCCGGGCCTTGTTTTGGAACAAGATGAAGGGCTTGAGGTTTGTTAGAGGACAATC
CCTTGCAAACAAATTCGTATCCTGAACTATTCTGTCTTTTGGCACAACCTTTTAGTATCC
TGAACTCATTACAATACTTATTCCCGACCTACTCATTGTTTTAAGATTATACTCCCTCGC
TTTAGGTTTGTTAGGCTCATCTCAAAAAATCTGAATTGTTAGTTTTGGAAGGCCCCTTGC
TTTAGGAATAGGCAAATATTAAGTACAGCCACATTAATTTCTATCTAAATTTGGTCCTCA
ATGTGGGGTCAACCAATGCATGAAGGAGGAGAGTGACCATGCATGCTGCATCAGTACATG
GTCCATCACTTAATTAGGTACTCCTTGGTTACAGTGATTTTTTGGATGAGCCAAATGGAT
TAAGCTTAAACTTTGTGCTGTACAATGAATAACCGTAGGTAGAAACTAGCATAATGCCCG
TGCGTTGCTATGAATCCATAAAAAGACCACTGTCTTAGGAAATCGTCAAAGGATGATGGT
GTCTTGGGGTTGTTGCATGGTTCACGATTGGAAAGAGAGCAAAAATGTAACGAAAGATCG
TGTTGCAGTCCTTGAAAAATCAAGCGACCATAGTAGGTACTTTGCAAGATTTATAGTGAG
ATAACATTTTGAATTTGAAGCATAAGAGGATGGGCATGAGTAAGTTGAATGCACAAGATC
GTGAAATTGCAATTTGTTTGCTCTCTTCTGCTATGATATAGAGCTGTAAGAATTGATTGG
GCAGAGACTAAAATCGAGACCATGATTTTGAGTTGGAGTTCCATACTTGCATTTACAATT
TGCATTTTTGTCAGAGTATTATTCTCACATTATGGTAGGTGTATTTGTTTACTTGGGATA
GGTCTCACACCAAGTGGAAGTAACATTTGTTTTTTAAAGGTTGCTAGTCTCACATATGAG
TACAAGTGCACTTGTTTATTTCCGTGGCCCCACATCTGAACTCACCACCAACTCCAATAT
TTATAAGTAGGAAAGATAACTGGTTACTTTAATTCTTTTGTAAATTCCCTTCCAAGTGTT
AAAATATGCCTGTTGCTTTTTAGAAATTTTGCTTGATCTTCTGGCTACTCTCAGACCTGT
GACATAATGCATGTTCATTGATGCATTCTCCAAGAATTCCCTCTCGAGGCAAGCAGTGAC
CAACCACCTAGTTGGTCTCATTTGATTGGAGACGCCCTGAACTTTCATCTGCTACCTACT
TGTGAGATGTTCTTGTATTGGACGTGTTGATGATCATTAGGTGACAGTTTACAGACGAAG
AGATTGAACAGAGCTATGAAGAATTTTATGAAGACGTGCACACAGAATTTCTGAAATTTG
GTGAACTTGTCAACTTCAAGGTATGTAGAAATGGATCGTTCCATCTTCGAGGAAATGTCT
ATGTGCATTATAAAGCTTTGGATTCAGCTCTTCTTGCCTACAACAGCATGAATGGTCGAT
ATTTTGCTGGGAAGCAGATAACATGCGAGTTTGTTGCTCTGACGAAATGGAAGTCTGCGA
TCTGTGGTGAGTACATGAGGTCAAGATTCAAGACATGTTCACATGGAGTTGCTTGTAATT
TCATTCATTGCTTTCGTAATCCTGGTGGAGATTATGAGTGGGCTGATTGGGACAATCCTC
CACCTAAATACTGGACTCGGAAGATGGCTGCTCTGTTTGGACCCTCAGATGATGCTGTTT
TTGACAAGGCGAGTGATGCCCCAGATTTCGAACGGTTACACAGTTCAGACAGGAAGAGAC
TGAGAAGTTCTGATGGCAGGTATATTTCAAGTAGACATAGGGATGGAGATGCACATAAAC
GGCACTCATCAAGAGTTTTTTCACATTCGAAGCAAGAACAGAGCAATTATATCATGAAAT
ATGGGCATACTCGACATAGTAGAGAACCATCTACAGCAAAAAAGCAACGAGGCCATGAGA
TTGAAGATGATATTGGCAGATACTGTTCGCCCGTGGAAAATGAAAGAGTGNNNNNNNNNN
NNNNNNNNAAAGAGTGTCCCAAACACACAAGCGTGAAGAGAAACATAGAGATGGCCATGG
CGATGGAGCACGTGGAGACAATGGTAAAATCAAGTCCAGGAAGCACAGATCTGAACAGCA
CGAAAGTCTGGAGTCTGGATGTTCTGATTGGCCTTCAGAATTTGCTGATGCAGGCACGAG
CAGAAGTCCTTCATGCAGCAAGTCCACCAACAGGTACAGTAATCACAATAGGAGTCGGGG
GCAATCCTTGGATGATTCCAATCTTGAAAGGGGCTACTCCACTGCGGACAAATCATCAGG
GAAAGCGCACATTGCCAAAAGTAGCTCGAGACATTACGTAGAAGATGACTCTTATGGTGA
GAAAGGTAGTGGAAGAGACAAATCTGGAAAGCACAGTGATCATTGTGATGACCCTGATGA
TAGATGGCTAGCAACAACTAGTGACGTTGATTCAGATGGAGAAACTCAATTCCTGAGATC
AAGCAGTGGAATTGGTAAAGGTGGAAAGAATGATAATGCTCCTCGAGACGAGGATGATCG
TTGTCAAAGGTCCAGCAGTAGGTCTGCTAGGTCAAGAGCGAACGAGACGAAGAGCAGTAG
GAAGAGGAAGAAGCATCACAGTGAAATCAGGAAGAATAGCGATAGTGATGACAGTCCGTC
AGACTCTAGTGACATTAGGGATTCGAGCTCACATGCATGGAGGAGTCGATCAAGAAGCAG
TGAGGAAGATCTCTCTTTACACAGACGGAGGAAGGGTCGCCTAGGTCATGATTCGTGATG
CTGCTGAAATTTCTGATCATTTGGTCACTAGACTGTCGACTTCGGTTTCTGGACGATCAA
ATGTTGTATAGATGCCAGTAGCTTATGCAGCAGTCCTTGCCAGCCTTGCTTTCTTCTTCA
CTTTGCCGATAAGGTTCTTTTTCCGGATAGAGGTTTCTTGCAAAGCAGAAGGCTTGTAAT
AGTTTTGCTAATTTAGAGTTGTTTACATCTCACCATTGGTTCCGCCCTGGAATTCCGACT
TTTTATGCCCATCACACTTGGTAGTAAGAGCATCTCCAACACATTTTCTGAAGTTACTCC
CAATAATTCTGGGTATTGGTACGCTTGCAACTAGTCCCATCACCTAAGCTTAGCTCCCAA
TAATTTGTGTACATATACCTTGTTTTTTTATTCAAACCCTGCTGTTTCTAGTGCAAACAT
TTCAAATGCATAATATTATTTTTAATTCAAATTCAGGCCATGCACAAGAATTCAAACGGT
AGGAGTGCTCCCTCCCTCTCTTCATCATCGCCCTCACCTCCTTCTTGTGCATCAATGGAA
GATGGCATGCTCAATACTGTCCTCTTTGGTGCTGTTTCTCAAATTACCATGCCACATTTC
TCATTTTCCTTGACC



Protein Sequence (297 aa)

>BART1_0-u39718.001 297 150831_barley_pseudomolecules
MNGRYFAGKQITCEFVALTKWKSAICGEYMRSRFKTCSHGVACNFIHCFRNPGGDYEWAD
WDNPPPKYWTRKMAALFGPSDDAVFDKASDAPDFERLHSSDRKRLRSSDGRYISSRHRDG
DAHKRHSSRVFSHSKQEQSNYIMKYGHTRHSREPSTAKKQRGHEIEDDIGRYCSPVENER
VXXXXXXKECPKHTSVKRNIEMAMAMEHVETMVKSSPGSTDLNSTKVWSLDVLIGLQNLL
MQARAEVLHAASPPTGTVITIGVGGNPWMIPILKGATPLRTNHQGKRTLPKVARDIT