Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20322.084

ChromosomeExonStartStopDirection
chr3H1230454148230453800+
chr3H2230454412230454273+
chr3H3230454815230454481+
chr3H4230456504230455549+
chr3H5230457777230456620+
chr3H6230458200230458030+
chr3H7230459428230458788+


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
morexEMB0.3138140.81390.463222
morexETI1.194951.064480.999112
morexLEA0.6095770.847310.874381
morexEPI1.532961.272071.80437
morexROO00.5228490.196922
morexROO21.173751.277981.19497
morexNOD0.2844460.8645311.15939
morexRAC1.253431.450321.75472
morexINF12.118871.529572.34073
morexINF23.072972.27542.20339
morexCAR52.381232.409391.57234
morexCAR151.015260.7557551.34453
morexLEM1.638181.264231.75848
morexLOD1.801031.950351.63535
morexPAL1.533121.186051.68285
morexSEN1.180651.031151.31645



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g19480.1 +1 1e-62 232 126/207 (61%) protein|SET domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g64460.4.p +1 2e-72 258 137/211 (65%) pacid=32796250 transcript=Bradi1g64460.4 locus=Bradi1g64460 ID=Bradi1g64460.4.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 (3750 bp)

>BART1_0-u20322.084 3750 150831_barley_pseudomolecules
AAAAAACCCTATCGTCATCCTACCCCCCGCACATCGCTACCCTATGCCGCCGTCATCATC
GCCGAGGGGATCCCCAGTCCCCGACCGCGGCCACCCGATCCCATGCCTGACCTTGGCGGC
GCCGACACGTCCCCGATCGCGGTCGCCCCGCTCCCTCCAGATTGCGGCAGGACCGCCTCG
TCCCCGACCGCGGCCGCGTCACCCTGTCAAAGAACGGTGACGCCTCACCCCGTCCCCGAC
CACGGCCGCCTCGCGTCGAGGAGAAGTAGGTGGTCGGCCTACGGCGGCTCGAACCATCGC
CATGGCGTCGTCCTCCTCCAAAGCCTCCTCCCACCGGGATGGCCCCATGATCAGTGGCTC
GACGTGGGCACCTCCGCGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAGCGCCAA
ATCCAGCAGGCCCGCCTCACCTCCATGAGGATAAAGCATCGGCATCATCTACGGAATTCC
TTGTGAATTGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGCACACCGGCGGCCTG
TTCGATGTGGCTGCCAAGGCGGAGGCGGCGTTGAGGGGCTCGGAGAGCAGCAATGTGCTG
TCGCAGCTCGCCTCGGACGGCCAGTCCAGGATCGTTGGGTGGAACCTGGCGAGAGGGTCG
GGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAACCTGTCGGCCGACGGGATGCTCGTG
CTCTGCAGCTCCGGCAACGGCGCACAAACCATCGTTTTGTAGATTATGAAGCTGTCGTCG
GTTGATAAGATTCCTCCCTACACCACGTGGATCTTCCTGGACAAAAACCAAAGAATGGCC
GATGATCAATCAATTGCTGGTAGGAGGAGAATTTACTATGATTCAGCTCGCAACGAGGCT
CTAATCTGGAGTGAAAGTGATGAACAAATTGCACAACCTGAGGAAGAGAAGCATGTTTTC
ACTGAAGCAGAAGATCAGCTAATATGGTAATAATAGAATATATATTGGCCAATTGAGATG
CTTTTTAATGCATATTGATGTTGAACTTGAAAATGCTTGTTGGCTAGCACATATTCTAGA
AGGACTTAGTAGTAGACTATTCTTTAATACTATGTTTCATCGCCAATTTTGCATGTTCGA
TGTGGCACACGTGCGGCATGTTCGATGTGGCCGCCAAGGCGGAGGTGGCGTTGGTATGCA
TATCAAACAAGATCTATATGCATTATCTTGAACCTGCAAATGATTCTAGACCAGCAATAC
AAGTATATGTTCACATATTGATGAAACTGAAAATGCTTCTGCTATTTCAGGTTCAACTTG
ATATTATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCTCGCCTCCGAGGAA
GAGAGATGATTGTCGTCCCTTGGTCGAGGATGGAGCTGACACGCTGTGACGCCACAGCTA
TTGAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGTCACCTAGGCTGGT
GTTTCTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATCAATGCACTCGAGGAGGCGGC
AGTGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTGCGATTTTCTACAT
GCGTTCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTCGGAACCACTAGATTG
TGACAGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCATCAACATGAACCG
GAGGGCCGTGAGGGACATCAAGAATATGATCAGCATGTTTATTTTCACATGACTGATGCC
CAGAGCTAGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATACTTAT
GGAACATATACGTTGTGCCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAGGTGAC
TTCCCGTAATGTGATGCTTTCACTTGAGATGACAATGCATATGATTTGTTAGCTGGGGGT
GTATAAGGACGGAAATCAGATTAGTTCTTAGGCATACAGTATTATGAGCGTATTTTGGTA
TCTGCTATATTTGGAAATCCTGTAGCAAGTCTGATTGTTGATTCTAATCTTGACAGGATT
TGTAGGTGTTTCCTTTTTGTTTTACATCTATAAAAAATCATTAATTACATTGCTGCTACA
AATCGTGAATTAGTATATGCATGTGCCTTTTACCTTTCTTGACTTGATGTGGCATCTGTA
ATTGCACAAGTGTCTTGGGTCATATTGAAATAGTGTGGATAGATCAATTTTTTTTATTCT
AACCTGTCATAAATTGTCATATTGAAAGTTAGCAGGCTCCCTCGTGTAGTTTTAAAATAG
CAAGTAGGTCTCCTTGGTGTACTCAATACTCGACAATAATGTTTGCGAATTGCAATGCAA
TACTTGGTCAAATACTCGACCTGGATGTTATGCACCTGTAGGAGTTTACGTCAATATGAT
CTCACCTTGAAATGTGTCGAAAAGGTCACTATCAGCATCTAATATTCAGTATCCTCTCCT
AAGCTTCATACACAGTTATTATATATACTTATGTGTGTTTTCTCCATTAGTTTGATACAA
TAATATATGCCCAATAGGTGAAAGCGAATGACATCATGAATCCAATGCTTTCATAGTGGA
TGGTAGATCTTCAAGCTTGTAATTTAGTGTTTCTATCTGTTTCGAAAGTTAGAAGTTAAA
AGAATATCATGTTGGAAATATTTGCTCAGATCGGCTATGCCAACATTTTAGCGATGCACT
GTTGTTGTGTTTTAGTTGCCTCGTACTGCTATCCCAATATAGTAATGCAGTCTTTTGCAG
CAAGTGCAGATGGTTATACGTTTGAAACATCAACTGGCCTGTCAAGAATGTGAGAGGCCC
TCGGGAGTGAAAAAACTATCATTTGAGATAGTTGTTGGATTGAACAGCCGGAGCGTGGTG
GCAAGGCAGCTAGAGACAAAAAGGGAATTGGTGAAAGAGCAACTCGCACATCTATAGGTC
TCTTGGAATCTCACATTTATCAATTTATGGAAAAGGGCATCCATTGGCATTCTAATAATT
TTGTTAGAGAACGGCATGGACTGAGGCAGCCGATGTGAACGAACACCGGGTACCCATAAA
CAAGAGGAAAAAACAACACATGTACAACGACAACAAGGTTAGCTAAGAAAAAATCAGGCT
GCCGGTGTCTATTAACCTAGGGCATGATCTTGGGACGTCCGGCTTCTTTCCAAAGTGAGA
TCTCATCCAACATCAGGTTGAAGACACTCAAAATGGTGGAACTTAAGTTGCGGACAATTC
TGGTGTTTCGCTCCTTCCACGTGAACCACCAGATAGCCTGCACTAAGTAGTTCCATCCCT
TCTTCTTCGGGGCAGCAAGACTGGCAGCGGAACTTTCCACTCAATCTGAGAGGCGGCTGG
TGTCGCTGGAGGGGCCTAAAGTAGCCGAGGTTGCAGGTAGCAGCATGAGCCGCCAAATAG
CCTGAAAAATAGGCATTGAGTGAGCAAAAGAATGTTGTCTTCATCCGTTGAGCGACTCAT
GTAGTACACCGGATCAGGGGAGCAGCCCCTTTTCTGCACATTGTCCCCGGTATATGTTGG
CTTGGCCTTCTACTGCCCTTTAGTTATGTTACTGTCTAGAAATATTTGTAGTAGTTTTAA
GATTTGAAAGCTCATTTTTATTAACTTGCTGTGTGTATGTGATTGTGAACTACTTCCATA
TTTTAGAAATATTATAAGGGAAAAGTTTTT



Protein Sequence (161 aa)

>BART1_0-u20322.084 161 150831_barley_pseudomolecules
KKPYRHPTPRTSLPYAAVIIAEGIPSPRPRPPDPMPDLGGADTSPIAVAPLPPDCGRTAS
SPTAAASPCQRTVTPHPVPDHGRLASRRSRWSAYGGSNHRHGVVLLQSLLPPGWPHDQWL
DVGTSALMALHGKLTQMKRQIQQARLTSMRIKHRHHLRNSL