Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u12609.001

ChromosomeExonStartStopDirection
chr2H1560837125560836702-
chr2H2560839280560838664-
chr2H3560840111560839880-
chr2H4560841176560840973-
chr2H5560841423560841263-
chr2H6560841998560841505-
chr2H7560842181560842111-
chr2H8560842352560842277-
chr2H9560844230560844063-
chr2H10560844887560844336-


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
morexEMB00.190270.137898
morexETI0.6192871.3430.427643
morexLEA0.2847450.2937370.275127
morexEPI0.3943150.0684920.146084
morexROO00.06960010
morexROO20.142320.1454550.531441
morexNOD0.085591300
morexRAC0.3172420.07774930.0855909
morexINF10.09734850.4451570.121522
morexINF2000.234069
morexCAR50.0002813620.003024620.00000480256
morexCAR15000
morexLEM0.1980870.2941090.231382
morexLOD0.11523300
morexPAL000
morexSEN0.3149560.8616710.86494



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os04g36660.1 +2 0.0 973 546/659 (83%) protein|calmodulin binding protein, putative, expressed
TAIR PP10 AT2G18750 @ ARAPORT
AT2G18750.3 @ TAIR		 +2 0.0 620 366/667 (55%) Symbols: | Calmodulin-binding protein | chr2:8125827-8128363 FORWARD LENGTH=622
BRACH PP3 Bradi3g46060.1.p +2 0.0 897 502/661 (76%) pacid=32814592 transcript=Bradi3g46060.1 locus=Bradi3g46060 ID=Bradi3g46060.1.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 (2999 bp)

>BART1_0-u12609.001 2999 150831_barley_pseudomolecules
CATCGACTACCCTATCGCACGTTGTAACCTAGTGCCCACTTGGCGACCCACTGTCAGCGA
AGTTAAAACTAGTCATCAGCCCAACACATCGACCGACTGGCGGGCCATCTTGGCACTGTC
AGTGACGAGTGCGGGTGAACACGGCAGTGCACATTTGCGTGCACAATCTTCATGGAGAAA
AATAATGGCCGGGATAGCCGCCACGGCTCTGAGCACCCTCCGGTCTCCAACCTACCCACC
ACACCCACAGACAGGCGGTCCCGGTTGCCGATGCCCCACTTGTCATCCAGGTTACCTGAC
TGACGGCGCGCGCGGTTGTTGGCGCCTCGTACGCGAGCCAAAACGAGTAAACAAAGCAAA
GGCAAAGGCGGGCGCCACCTCCACCCACGCCACACATAGATCTCTCTCTCTCTCCCTCCA
TCTCTTGCTTTGCCTCTAGTCGTCGCCCAGTCGCTGCCGCACTGCTCCGGCTCGAGCTCG
ACGCGGGAAGGAGCAGCCCGGGCCTTCTCCAACCCTCGTGCCGCTATCGTTTGCCAGTTA
CTAGTTGCTAAGATCTGACCCACGGCGCCGGCAAGGTTGTGGCGCCGCGGAGATGCAGAG
GCAGGGGCGCCACATGGAGCGGTCTGGCTCCAAGCGGGCGCTAGACCCTGGCGGCAGTGG
CGGAGGCGGCGGCGACGACGAACGTGATCCTAAACGGCCGCGCGTCCCGGCCCTCGCCAG
TGTCATTGTAGAAGCTCTCAAGTTGGACAGTTTGCAGAAGCTTTGTTCATCCCTGGAGCC
GATTCTCCGAAGAGTTGTCAGCGAAGAAGTAGAGCGTGCTTTAGCCAAATTGGGACCTGC
AGCAGCACCTGCTAGAATTGAAGGAAGGACCTCTCCCAAAAGAATTGAGGGCCCCAATGG
TAGTAACCTCCAGCTTCAGTTTCGGAGTAGGTTAGCACTCCCACTCTTTACTGGAGGAAA
AGTGGAAGGCGAGCAGGGAGCATCAATACATGTTGTGCTGTTAGATGCAAACACTGGACA
TGTCGTCACTTCAGGACCCCAGTCATCTGCGAAACTGGATGTTCTTGTTCTCGAGGGTGA
TTTTAATAAAGAGAAGGACGAGGATTGGACTGAAGAAGAATTTGAGAGCCACATTGTGAA
AGAACGTGAAGGGAAGAGGCCTCTTTTAAACGGTGATATCCATGTGACACTTAAAGAAGG
CGTAGGGACCATAGGAGAGCTTATCTTCACTGACAATTCCAGCTGGATAAGGAGCAGAAA
ATTCAGACTTGGGATGAGAGTCTCTTCAGGATTTTGTGACGGAGTTCGTATCAAAGAGGC
GAAGACAGAGGCTTTTACTGTGAAAGATCACAGAGGAGAATTGTACAAGAAACATTACCC
TCCTGCGCTTAAGGATGATGTTTGGAGACTGGAAAAGATTGGAAAGGACGGTGCATTCCA
CGGGAAACTAAACTCAAACGGAATCTATACAGTTGAACATTTTCTTCAACTTCTTGTTAA
AGATCAACAGAAGTTAAGAAGTATCCTTGGTACTGGCATGTCAAATAAGATGTGGGAAAG
TCTTGTTGAACATGCAAAAACTTGTGTTCTGAGTGGCAAACATTATATATATTACTCGAA
GGATACAGCAAGTGTTGGTGCAATATTCAATAACATATATGAGTTCACTGGTTTGATTGC
TGATGATCAGTTTATTTCAACGGAAAATCTTACTGAAAACCAGAGGGTGTTTGCGGATAC
GTTGGTGAAGCAAGCATACGATGATTGGATCAATGTTGTAGAATATGATGGCAAGGGATT
GTTGAAATTTAAGCAGAAAAAGAAATCTGTCACAACAAGAAGTGATGTTGCAAATGTCTC
TACAAGCTACACTTCTTATGATTCAGCGCACTCTCAGAAACAATTGGCACGAGGACATGC
CAATATTGAGCGATCTCTCATGAGCAGTACGACTAAAGCAGACGAGACAAGAATTGCATC
CAACGGGAATCAAGTAGCAATATATGAAGCCAATCCTCAGGACATTTCACCAAGTATTAC
CATGCAATATGGCATGAGTTCATTGATCCCTGAAGGCCAGTTCAATGGCTCTTCCATCCA
AACTCAAGCATCAAGAAGCTCCAACATGCTAGCATTTGGACCTCCACCACAGCAGCCGCA
TAACTTCGAATTCTCAGCATTTGGTCTGTCCATGCAATCCCCAGCTCCTAATCCTTTTGA
TGACTGGCCTGGACGGTTGCAGGAGAACCGCGGTGGTGTTGATGACTGTCTGATGGAGGA
GATAAGAGGGAGAAGCCATGACATGCTGGAGAATGAAGAAGAGATGCAACATATGCTGCG
CATTCTTAGCGGCGGGGCAGCAGCAAACATGAATAATGTAGGTGGCTTTCCCTCCTACCC
TTCTCCTGTACCGGACTTCAACTTCGTGGATGATCGTGCTCCCTCATCCGGTAAGGCTGT
TGTTGGGTGGCTTAAGATTAAGGCTGCCATGCGGTGGGGCATCTTCGTCAGGAAGAAAGC
AGCTGAGAGAAGAGCTCAGCTTGTTGAGCTGGATGACTAGGGGATACGGATGTTGGACAC
GCGAAGTGAGCAAAACTCGCTATGAGGAGAAGACTCGGCAAGAGAGGTTTGAACAAGAGG
AACTCTTCACCAAGCAAACCATGGAATGATAAATTTTAAGAGTCTACTAACCATCTTAAT
ATCATCAACGGTCATTAAAAAGCAGGCCTTCGGGCATCTGTGTTCTGCAGCAAAAAGGAG
TCAACATATTTCTGTTCAAAGAAGTTTCAGTCATACTATCTACATGCATTTTTGTGCATC
ACCATCAGTGTATATCAAAATATGCACAAAGCAAGAATTGTTATCTATATTTATTATTAT
TAGTTGTAGACTTGTAACATAGGTACTGGACAACTAATCATCGGTGTTTGCCATGTGATT
CATGTGGAAGATTAACAAGTTTGAGGCTTTTCATGTGGATATGAATAGGTATCTAGTAC



Protein Sequence (655 aa)

>BART1_0-u12609.001 655 150831_barley_pseudomolecules
MQRQGRHMERSGSKRALDPGGSGGGGGDDERDPKRPRVPALASVIVEALKLDSLQKLCSS
LEPILRRVVSEEVERALAKLGPAAAPARIEGRTSPKRIEGPNGSNLQLQFRSRLALPLFT
GGKVEGEQGASIHVVLLDANTGHVVTSGPQSSAKLDVLVLEGDFNKEKDEDWTEEEFESH
IVKEREGKRPLLNGDIHVTLKEGVGTIGELIFTDNSSWIRSRKFRLGMRVSSGFCDGVRI
KEAKTEAFTVKDHRGELYKKHYPPALKDDVWRLEKIGKDGAFHGKLNSNGIYTVEHFLQL
LVKDQQKLRSILGTGMSNKMWESLVEHAKTCVLSGKHYIYYSKDTASVGAIFNNIYEFTG
LIADDQFISTENLTENQRVFADTLVKQAYDDWINVVEYDGKGLLKFKQKKKSVTTRSDVA
NVSTSYTSYDSAHSQKQLARGHANIERSLMSSTTKADETRIASNGNQVAIYEANPQDISP
SITMQYGMSSLIPEGQFNGSSIQTQASRSSNMLAFGPPPQQPHNFEFSAFGLSMQSPAPN
PFDDWPGRLQENRGGVDDCLMEEIRGRSHDMLENEEEMQHMLRILSGGAAANMNNVGGFP
SYPSPVPDFNFVDDRAPSSGKAVVGWLKIKAAMRWGIFVRKKAAERRAQLVELDD