Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u19417.008

ChromosomeExonStartStopDirection
chr3H1156626357156625889-
chr3H2156627286156627201-
chr3H3156629026156627930-
chr3H4156629827156629587-


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
morexETI000
morexLEA000
morexEPI000
morexROO000
morexROO2000
morexNOD000
morexRAC000
morexINF1000
morexINF2000
morexCAR5000
morexCAR15000
morexLEM000
morexLOD000
morexPAL000
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os05g14180.2 +3 2e-56 191 117/191 (61%) protein|OsIAA17 - Auxin-responsive Aux/IAA gene family member, expressed
TAIR PP10 AT4G29080 @ ARAPORT
AT4G29080.1 @ TAIR		 +3 8e-35 134 89/200 (45%) Symbols: PAP2, IAA27 | phytochrome-associated protein 2 | chr4:14323665-14325213 REVERSE LENGTH=305
BRACH PP3 Bradi2g07770.1.p +3 1e-76 244 135/181 (75%) 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 (1893 bp)

>BART1_0-u19417.008 1893 150831_barley_pseudomolecules
gCGCGGACGACGACCTGAAAGGCACCGAGCTCCGCCTCGGACTTCCCGGCTGCGAGTCGC
CGGACCGCCGCCCGGTCGCCGCCACCACCACACTGGAGCTTCTGCCCGCCAAGGGCGCCA
AGCGAGGGTTCTCGGACGAGGTCCTGCCGCCTGCGCCGTCTGCCGCCGGCGGGAAAGGCA
AGGAGACGTCCGGGGATGAGAAGGACAAGAAGGTCGCCGCACCGCCGCAGCCTGCTGCCA
ACCGAACGAAATGCTGGGTCGGCTCCATTGCCGGTTCTTACTCTCAATTACCGATGCGCA
GGGCTCAGGTGGTGGGATGGCCACCAATCCGCAGCTACCGCAAGAACACGATGGCAACCA
CCACCAACCAGCTGAAGAGCAGCAAGGAGGATTCTGACGCGAAGCAGGGGCAAGAGTTTC
TGTATGTCAAAGTCAGCATGGATGGCGCGCCTTACCTGAGGAAGGTTGACCTCAAGACAT
ACAAGAACTATAAGGACCTGTCTCTGGGGCTAGAGAAAATGTTCATTGGCTTCAGCACCG
GTGAGGCTGCTCGGATCCTCGGCAAATTGTTGCTGTTTCCATCTGCACCTGAAATTTGAT
CTGTGGTAGAAGAAATGCATCATTGCACACATCTCGTTTTGTTGAAGAAATAATCAATTA
CTCTGTTTGGAAATGTTCTAGCAAATTTCAGGTTTATGAAATTGACGAAGAAGACTCTTT
TCAGGGCTGGCGAAATTGGTTATTGTGGTGACAACCAGTTTGCGATGCCTCGCTTCTAAA
TTTGTCCAAGCTATTTATGTACAAATTTGTTTTGCTAGATGCCTAGTTTCAACATATATT
ATTACTGGTGGAGCAAATATTCTCTTCTAATTCAAGGAGCTTTTCTTGTGTTTAATACTG
ATTGAGCGAGCAACTAACAGTGTAGATTAGACTATGTCATAAACATGCCTAATGTTTAGG
CTAGCATTAGCTAAGGGTCTGTAAATATCACTCAATTATTCATAAGCCTTTGATAAACAA
CAATTTCCCTGAAATGTCTTCATACCTATTTTGTGCTTCAAGGTCAGACACCAAACCTAC
TAATTTAAAAACGTAAATTGCAGGAAGGTGTATATTTAGGGACATAAAATTTGTCAACAT
ACCAGTGCTGTGTTAAGAAGTTTAGTGTCAGGTGGCCCTTTCTCCGGCATTTTGTTTATT
TGTCCTTACATGTGGCACTGGTTCTAATTTTGTACCAGGTAAAGATGGTGTATCTGAGAA
CAGAAAGGATGGTGAATACGTGCTGACCTACGAAGACAAGGACGGAGACTGGATGCTGGT
TGGTGACGTCCCATGGGAGATGTTCACCGAGTCTTGCCGAAGGCTGAGGGTCATGAAAGG
TTCAGATGCAGTTGGACTTGGTATGTCCAAAAGTGTTGCGATTACAGTTCCAAGGGCAGG
GGATAAGTCCAAGAATAAGAACTAAAGCGGTTGCTGCCCACAGTTTGAAGACGGGGTCGC
ACATACCGTCTGTACTACCGCATGGTTTTTCTATCCCGCAAGTAAAATCACTCCGTTACT
CTACTGTTGTAAGATTTGTGATGTCTCCTAGAGACTTATGCTTTATATTTTGTCGTGCCG
AAGTTGTTGTACGCATGCTATTTCCATCCGTGTAAATGGTTGGTAAGCAGTGCGAGAGCT
ACTGCTGTGATTTGATGACTTCTATGTATTTTGCCAGTGTTGTCCTGAACCGGCCGTTCG
TCGTAAATGTGAGGGTTGCAAGACAATTATTTACCTGATGAACTTTGCTTCCGTACACCC
TCCTAGAAAAGTTTACAGATTTCGATGTAGGTTAGAAGTTACTGCACTTTAATTATTAAA
TAGAAAAAAGGGCAACATAGTCTTTCGTATCCA



Protein Sequence (198 aa)

>BART1_0-u19417.008 198 150831_barley_pseudomolecules
ADDDLKGTELRLGLPGCESPDRRPVAATTTLELLPAKGAKRGFSDEVLPPAPSAAGGKGK
ETSGDEKDKKVAAPPQPAANRTKCWVGSIAGSYSQLPMRRAQVVGWPPIRSYRKNTMATT
TNQLKSSKEDSDAKQGQEFLYVKVSMDGAPYLRKVDLKTYKNYKDLSLGLEKMFIGFSTG
EAARILGKLLLFPSAPEI