Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u43238.004

ChromosomeExonStartStopDirection
chr6H16421527064214416-
chr6H26421564664215404-
chr6H36421657364216523-
chr6H46421755264217463-
chr6H56421922764219027-
chr6H66421973764219387-
chr6H76421996164219846-
chr6H86422092564220808-
chr6H96422117364221008-
chr6H106422229464221836-
chr6H116422329364223180-


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
morexEMB1.372010.7497060
morexETI1.620022.679092.74782
morexLEA2.46212.575370.000143347
morexEPI0.7674510.8800480.00000104145
morexROO0.5112240.4491190
morexROO20.0000001107330.0000002399350.922047
morexNOD04.221260.0434384
morexRAC2.787663.543451.27243
morexINF14.263142.813012.31942
morexINF26.110282.871733.20867
morexCAR51.082235.465033.60469
morexCAR151.9062600
morexLEM6.884871.98641.71318
morexLOD6.497634.170222.16945
morexPAL003.07422
morexSEN1.356480.0000000009124450.000107401



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g05450.1 +2 0.0 731 450/750 (60%) protein|Homeobox domain containing protein, expressed
TAIR PP10 AT4G29940 @ ARAPORT
AT4G29940.2 @ TAIR		 +2 8e-73 255 164/430 (38%) Symbols: PRHA | pathogenesis related homeodomain protein A | chr4:14648346-14652710 REVERSE LENGTH=769
BRACH PP3 Bradi3g03747.3.p +2 0.0 1026 560/750 (75%) pacid=32817691 transcript=Bradi3g03747.3 locus=Bradi3g03747 ID=Bradi3g03747.3.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 (2764 bp)

>BART1_0-u43238.004 2764 150831_barley_pseudomolecules
NNNNNNNNNNGCCCCCGCCGGCTTCCAATTGGAGGAATTCGGATCTCCTCCCCCTCCTCC
TCCTCCTCTGCTGGGCTTGCTTGGAGCGGAGATCCACCGGGGCCTCAGCTCTCGTCGGAT
GTGATACTATCAAGTTCTGACAATGAATAATTCAGACAAGAAGTCGGTATGCTCCATTCC
TAGAAGATCATCAGAACGTAGGAAACCGTCCTCTTCTGAGTTGGTTTCTTCAGCAAAAAG
GCCAACTCGCCACAACACCTCCAGCAGTTATAAGCCAGATCATTGTTCTCCTCCCAAGAG
AACAGTAAGAACAGTCAGGAATGTTAATCTGGCAAAATATGTAAAGAACAAGTATTATCG
TAGTCCTCTGAGCAAGCGGCAGGCTTCAAATGTTGCTACTGGAAAAACTGCAACAGGACC
AGTCAGGAGGAGGAACCGGAAACGGAGAAGGCACAACACTGATTGTGACGAGGCAAGTCG
CATGGAAAGAAGGGCGAGCTATTTGCTGGTCAAAATAAAAACGGAGCAGAATTTAATAGA
TGCATACTCTGGAGATGGCTGGAATGGGCACAGCCGAGAGAAATTAAAGCCAGATAAGGA
GCTACAGCGTGCTAAGAAACAGATCATTAAATGCAAAATTGCTATCCGTGATATTATCCA
TCAACTTGATTTGTATAGTTCAAGTGGGAGCATGGAAGATTCCGTGATGCCTCCAGATGA
GTCTGTTAACCCTGATAATACCATATGTTCAAGATGCAAATCTCCTGAATCAGTTCCCAA
CAATAAATTTATCTTCTGTGAAGGGCCCTGCAAAATGGCGTACCATCAGAAATGTTCAGA
ACCTCCTCTAGACAAAAGTCTTCCTACTGGTGGTCCTGGATGGCTTTGTAAATTCTGTTT
GTGCAAGATGAAAATTTTAGAAGCTGTTAATGCACATTTGGGAATGAGCCTTACAGTGAT
GTGTCCCTCTAAAGATATTTTTAAGGAAGCAACTGAACAGATGGACTCTGAGGATGGACT
AGGAGAGGATTGGTTATCTGAGTATTCAGGTGATGAGGACTATGACCCTGAAGAAAATGA
CTTCACAAGCAGCAGCCTGGATAGTGGTGAAGAAAGGATATCTGATCAGTCCAATTGTTC
AGGAAGTCCGCTTTATTCTCCAAACGATGATATTCCAGGCTTTATATCAGCAGATTTCAC
TGATGCGGAAGGATTCTACCACACCAATTCAAATTTAGGAATTGATTCTGGGGATGATGA
TGCTGCCGAGATGCTTACCTACCAAAGGCCAAAGAAAGAGGTTGATTATAAAAGACTTAA
TGAGGAAATGTTTGGAAAGCTGACTGACAATGAAAAGCAGAGTGAAGATGAAGATTGGGG
TACTAGTAATAAGAGAAAGAAAAGAAGAGTGGATTCAGCTGGTGTTGGAGTTAAGTCTGC
CGAGGGTTTCTCAGATGTAAAATCAAATGAGAAAGTCCAACCGCAGAGGAGAAAACTTTT
CAGAATTCCTCCTGAGGCAGTTCAGGTACTACGCAAATCTTTTGCTGAAAGCGAGCTTCC
AACCCGGGAGGTGAAAGAGAATCTCTCAACAGAATTGGGTATTTCATTTGAAAAGATTGA
CAAGTGGTTCAAAAATACAAGGTGTGCTGCTCTCAGAGATCGGAAGGCTGAAGGAAATAG
CCGTGTTGCTGGCCCCAGCAAAAGATCGAGACGGAGTGCAGGGAAATCTGGAAGTTCAGG
CAAGGTTGATTCAGTGGACAATTCATATCTTCTTCCCGCGTCTGAAATCATCAGTGTACC
TACACATCCACAAGGGATTCCTGAGAGGAAGCCCGAATCAACCAGTAGAACTGTGAGGGG
GCGGGTACACGATAAAGGAGCTCCCTTGTGCCTGACCGCCAAAGTCAAGGAGAGTACATC
ACCTACAACCAAGCCTGTCTTGAACACACACCCTACTCATCTAGCAGATCGCATCATCAA
CACTGAGCATAGAGCTGTCTCTCAGGAGGACACAGGGCCCTCCGATGACCCTTTCTTCGA
TGCGATCCTATCCTATCCCACCATCAACACAAGCGACAGAGCTGCCTCTCGGGATGATCC
GGTGGCCTTCGAGGACGACCCTTTCCTGGACGTGATGCTAGCAAACCGCGACATCTATAC
CGAGGAGAGAGTCGCTTCTCACGAGGACGTGAGGCGGACTTCCAGCGACCAGCCTTTCCT
GGATGTGATCCAGAACGTGTGCGGACTCGAGCATAGGCTGCAGAGACTGAAGGGGGACAT
GCTATCATCATCAGCAGCACCAGGCGGCGCTGGAACCACAGAGCGCGACCTGCAGAGCCA
ACTAGTGGTTCTCGTGCCAACCGCCGAGCTGAAGGACAAATCACAGCCTGGCATCTGAAA
TTCCGGGTGCGGATGCGACGCTCCGTTTGCGTGTTGTCGATAGGAGTTACTAAAACATAT
AGAAGAAATAGTGTAGAGAAGGAGAAGAGAAAGAAAAGTAGTGGCTCTAGTCTAGGGTTC
TAGCCGACAAGGGGCCTCAACCGTGGTCGTTACTGTGTGTCACATTGAAGTGCGTCTTCG
TTGTTACTTAGTATACAAGGGCAGTTGTTACTGGTTTTAATGGGTTGGAGTTATATACTT
TTCGGGGTTCAAAATGTTTGGTTTGGAACCATGTCGATGTGCAAACTTTGAGTAACCTCA
ATTCTCATTTTTTTTCCCATTTTACTAAAAAAAATCAGTTTTACCTGCAAGTGAAAATCC
GTAG



Protein Sequence (751 aa)

>BART1_0-u43238.004 751 150831_barley_pseudomolecules
MNNSDKKSVCSIPRRSSERRKPSSSELVSSAKRPTRHNTSSSYKPDHCSPPKRTVRTVRN
VNLAKYVKNKYYRSPLSKRQASNVATGKTATGPVRRRNRKRRRHNTDCDEASRMERRASY
LLVKIKTEQNLIDAYSGDGWNGHSREKLKPDKELQRAKKQIIKCKIAIRDIIHQLDLYSS
SGSMEDSVMPPDESVNPDNTICSRCKSPESVPNNKFIFCEGPCKMAYHQKCSEPPLDKSL
PTGGPGWLCKFCLCKMKILEAVNAHLGMSLTVMCPSKDIFKEATEQMDSEDGLGEDWLSE
YSGDEDYDPEENDFTSSSLDSGEERISDQSNCSGSPLYSPNDDIPGFISADFTDAEGFYH
TNSNLGIDSGDDDAAEMLTYQRPKKEVDYKRLNEEMFGKLTDNEKQSEDEDWGTSNKRKK
RRVDSAGVGVKSAEGFSDVKSNEKVQPQRRKLFRIPPEAVQVLRKSFAESELPTREVKEN
LSTELGISFEKIDKWFKNTRCAALRDRKAEGNSRVAGPSKRSRRSAGKSGSSGKVDSVDN
SYLLPASEIISVPTHPQGIPERKPESTSRTVRGRVHDKGAPLCLTAKVKESTSPTTKPVL
NTHPTHLADRIINTEHRAVSQEDTGPSDDPFFDAILSYPTINTSDRAASRDDPVAFEDDP
FLDVMLANRDIYTEERVASHEDVRRTSSDQPFLDVIQNVCGLEHRLQRLKGDMLSSSAAP
GGAGTTERDLQSQLVVLVPTAELKDKSQPGI