Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u19417.012

ChromosomeExonStartStopDirection
chr3H1156626357156625912-
chr3H2156628029156627225-
chr3H3156628966156628728-
chr3H4156629790156629583-


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
morexEMB0.4837381.127941.5186
morexETI2.108814.097587.79339
morexLEA2.470830.4604931.56156
morexEPI2.345462.94073.66516
morexROO00.5885040.368461
morexROO20.7473310.4435830.676564
morexNOD1.235271.505931.73172
morexRAC2.115161.101381.12524
morexINF11.014621.146371.27386
morexINF21.822352.297191.45472
morexCAR51.380461.2440.982515
morexCAR1500.1417140.209304
morexLEM0.11280600.153755
morexLOD0.551850.4196720.459638
morexPAL0.3940690.3146211.14648
morexSEN0.7332390.4096550.303504



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os05g14180.1 +3 6e-63 208 101/111 (91%) protein|OsIAA17 - Auxin-responsive Aux/IAA gene family member, expressed
TAIR PP10 AT4G29080 @ ARAPORT
AT4G29080.1 @ TAIR		 +3 1e-39 146 77/135 (57%) Symbols: PAP2, IAA27 | phytochrome-associated protein 2 | chr4:14323665-14325213 REVERSE LENGTH=305
BRACH PP3 Bradi2g07770.1.p +3 3e-74 218 104/111 (94%) pacid=32771633 transcript=Bradi2g07770.1 locus=Bradi2g07770 ID=Bradi2g07770.1.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 (1698 bp)

>BART1_0-u19417.012 1698 150831_barley_pseudomolecules
CGGACTTCCCGGCTGCGAGTCGCCGGACCGCCGCCCGGTCGCCGCCACCACCACACTGGA
GCTTCTGCCCGCCAAGGGCGCCAAGCGAGGGTTCTCGGACGAGGTCCTGCCGCCTGCGCC
GTCTGCCGCCGGCGGGAAAGGCAAGGAGACGTCCGGGGATGAGAAGGACAAGAAGGTCGC
CGCACCGCCGCAGCCTGCTGCCAAGTAGGGCTCAGGTGGTGGGATGGCCACCAATCCGCA
GCTACCGCAAGAACACGATGGCAACCACCACCAACCAGCTGAAGAGCAGCAAGGAGGATT
CTGACGCGAAGCAGGGGCAAGAGTTTCTGTATGTCAAAGTCAGCATGGATGGCGCGCCTT
ACCTGAGGAAGGTTGACCTCAAGACATACAAGAACTATAAGGACCTGTCTCTGGGGCTAG
AGAAAATGTTCATTGGCTTCAGCACCGGTAAAGATGGTGTATCTGAGAACAGAAAGGATG
GTGAATACGTGCTGACCTACGAAGACAAGGACGGAGACTGGATGCTGGTTGGTGACGTCC
CATGGGAGTAAGTACATTGTCTGATCTAATTGGAACAACAACAAGCGGAGAAATGAGAAC
ATTGGAAGATAGTTTGGGTTCTGTAATAAAACTTTAAAGGGATGATCAATAATGAGAGTG
TGCCAAATAAAATGAACTCCTTCTCCAAAGCAGCAATGATTAGAGTATCTCTTAAGATCC
ATCCAACCTGTTCTACTTCTTTATTTTAGAATGCATACAGTCGACCTCTTAAAACTCTGA
CATAGATATACTCAAGTTTTATTTAGTTTTTCAGTAAAATTGTGCTTTGTTTTTTTAAAG
CTTTTGCTATTAGGAAAAACAATGGTCTAAGCAACTTATTGGAGATAGTATTGACGCCAA
AAGAACCAGTAAAAATGAACGGAACTAGTAGCCTAGCACTAGTAGTTACTTTGTTATATT
TTTATTATGTTGTAATTGCTCTAAATTCTACAGTCCTGGTGTTCTATTGCTGCCATGTAG
CATCTCATGCCTGAACAAGTGAGAGGGTTTTAATGCAGTCACTAAACTCACTGTAGTTAT
TCTTGTGGCTCTTTAATTGTTATAATTTCGTTGTGAAGAAAACCATGAATATCTGGTGCA
TACCTGCTCTCTGAGCGTGTCAAGTGATGGCTTCTTATTTGTAATTGCAGGATGTTCACC
GAGTCTTGCCGAAGGCTGAGGGTCATGAAAGGTTCAGATGCAGTTGGACTTGCAGTTCCA
AGGGCAGGGGATAAGTCCAAGAATAAGAACTAAAGCGGTTGCTGCCCACAGTTTGAAGAC
GGGGTCGCACATACCGTCTGTACTACCGCATGGTTTTTCTATCCCGCAAGTAAAATCACT
CCGTTACTCTACTGTTGTAAGATTTGTGATGTCTCCTAGAGACTTATGCTTTATATTTTG
TCGTGCCGAAGTTGTTGTACGCATGCTATTTCCATCCGTGTAAATGGTTGGTAAGCAGTG
CGAGAGCTACTGCTGTGATTTGATGACTTCTATGTATTTTGCCAGTGTTGTCCTGAACCG
GCCGTTCGTCGTAAATGTGAGGGTTGCAAGACAATTATTTACCTGATGAACTTTGCTTCC
GTACACCCTCCTAGAAAAGTTTACAGATTTCGATGTAGGTTAGAAGTTACTGCACTTTAA
TTATTAAATAGAAAAAAG



Protein Sequence (182 aa)

>BART1_0-u19417.012 182 150831_barley_pseudomolecules
DFPAASRRTAARSPPPPHWSFCPPRAPSEGSRTRSCRLRRLPPAGKARRRPGMRRTRRSP
HRRSLLPSRAQVVGWPPIRSYRKNTMATTTNQLKSSKEDSDAKQGQEFLYVKVSMDGAPY
LRKVDLKTYKNYKDLSLGLEKMFIGFSTGKDGVSENRKDGEYVLTYEDKDGDWMLVGDVP
WE