Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u43238.001

ChromosomeExonStartStopDirection
chr6H16421527064214315-
chr6H26421564664215404-
chr6H36421657364216523-
chr6H46421755264217463-
chr6H56421922764219027-
chr6H66421973764219411-
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
morexEMB0.07925070.0002766750
morexETI0.00000000237630.0000002578590.00000000291152
morexLEA0.001620270.000007919690.00000000917075
morexEPI0.029850600
morexROO1.399670.000002967750
morexROO2000.0000000211854
morexNOD00.000174740.000000000646212
morexRAC0.0000000002062080.0000000005885860.000000000714752
morexINF10.002361280.0001080060.00180074
morexINF20.0000004019050.0000001860350.000000290802
morexCAR50.000000006451260.000002718020.000025217
morexCAR150.0012642400
morexLEM0.000005891770.0000000002948280
morexLOD0.00000000062807100
morexPAL000
morexSEN0.0000000009427200



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g05450.1 +2 0.0 713 445/750 (59%) protein|Homeobox domain containing protein, expressed
TAIR PP10 AT4G29940 @ ARAPORT
AT4G29940.2 @ TAIR		 +2 2e-46 179 89/180 (49%) Symbols: PRHA | pathogenesis related homeodomain protein A | chr4:14648346-14652710 REVERSE LENGTH=769
BRACH PP3 Bradi3g03747.3.p +2 0.0 1005 554/750 (74%) 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 (2841 bp)

>BART1_0-u43238.001 2841 150831_barley_pseudomolecules
NNNNNNNNNNGCCCCCGCCGGCTTCCAATTGGAGGAATTCGGATCTCCTCCCCCTCCTCC
TCCTCCTCTGCTGGGCTTGCTTGGAGCGGAGATCCACCGGGGCCTCAGCTCTCGTCGGAT
GTGATACTATCAAGTTCTGACAATGAATAATTCAGACAAGAAGTCGGTATGCTCCATTCC
TAGAAGATCATCAGAACGTAGGAAACCGTCCTCTTCTGAGTTGGTTTCTTCAGCAAAAAG
GCCAACTCGCCACAACACCTCCAGCAGTTATAAGCCAGATCATTGTTCTCCTCCCAAGAG
AACAGTAAGAACAGTCAGGAATGTTAATCTGGCAAAATATGTAAAGAACAAGTATTATCG
TAGTCCTCTGAGCAAGCGGCAGGCTTCAAATGTTGCTACTGGAAAAACTGCAACAGGACC
AGTCAGGAGGAGGAACCGGAAACGGAGAAGGCACAACACTGATTGTGACGAGGCAAGTCG
CATGGAAAGAAGGGCGAGCTATTTGCTGGTCAAAATAAAAACGGAGCAGAATTTAATAGA
TGCATACTCTGGAGATGGCTGGAATGGGCACAGCCGAGAGAAATTAAAGCCAGATAAGGA
GCTACAGCGTGCTAAGAAACAGATCATTAAATGCAAAATTGCTATCCGTGATATTATCCA
TCAACTTGATTTGTATAGTTCAAGTGGGAGCATGGAAGATTCCGTGATGCCTCCAGATGA
GTCTGTTAACCCTGATAATACCATATGTTCAAGATGCAAATCTCCTGAATCAGTTCCCAA
CAATAAATTTATCTTCTGTGAAGGGCCCTGCAAAATGGCGTACCATCAGAAATGTTCAGA
ACCTCCTCTAGACAAAAGTCTTCCTACTGGTGGTCCTGGATGGCTTTGTAAATTCTGTTT
GTGCAAGATGAAAATTTTAGAAGCTGTTAATGCACATTTGGGAATGAGCCTTACAGTGAT
GTGTCCCTCTAAAGATATTTTTAAGGAAGCAACTGAACAGATGGACTCTGAGGATGGACT
AGGAGAGGATTGGTTATCTGAGTATTCAGGTGATGAGGACTATGACCCTGAAGAAAATGA
CTTCACAAGCAGCAGCCTGGATAGTGGTGAAGAAAGGATATCTGATCAGTCCAATTGTTC
AGGAAGTCCGCTTTATTCTCCAAACGATGATATTCCAGGCTTTATATCAGCAGATTTCAC
TGATGCGGAAGGATTCTACCACACCAATTCAAATTTAGGAATTGATTCTGGGGATGATGA
TGCTGCCGAGATGCTTACCTACCAAAGGCCAAAGAAAGAGGAAATGTTTGGAAAGCTGAC
TGACAATGAAAAGCAGAGTGAAGATGAAGATTGGGGTACTAGTAATAAGAGAAAGAAAAG
AAGAGTGGATTCAGCTGGTGTTGGAGTTAAGTCTGCCGAGGGTTTCTCAGATGTAAAATC
AAATGAGAAAGTCCAACCGCAGAGGAGAAAACTTTTCAGAATTCCTCCTGAGGCAGTTCA
GGTACTACGCAAATCTTTTGCTGAAAGCGAGCTTCCAACCCGGGAGGTGAAAGAGAATCT
CTCAACAGAATTGGGTATTTCATTTGAAAAGATTGACAAGTGGTTCAAAAATACAAGGTG
TGCTGCTCTCAGAGATCGGAAGGCTGAAGGAAATAGCCGTGTTGCTGGCCCCAGCAAAAG
ATCGAGACGGAGTGCAGGGAAATCTGGAAGTTCAGGCAAGGTTGATTCAGTGGACAATTC
ATATCTTCTTCCCGCGTCTGAAATCATCAGTGTACCTACACATCCACAAGGGATTCCTGA
GAGGAAGCCCGAATCAACCAGTAGAACTGTGAGGGGGCGGGTACACGATAAAGGAGCTCC
CTTGTGCCTGACCGCCAAAGTCAAGGAGAGTACATCACCTACAACCAAGCCTGTCTTGAA
CACACACCCTACTCATCTAGCAGATCGCATCATCAACACTGAGCATAGAGCTGTCTCTCA
GGAGGACACAGGGCCCTCCGATGACCCTTTCTTCGATGCGATCCTATCCTATCCCACCAT
CAACACAAGCGACAGAGCTGCCTCTCGGGATGATCCGGTGGCCTTCGAGGACGACCCTTT
CCTGGACGTGATGCTAGCAAACCGCGACATCTATACCGAGGAGAGAGTCGCTTCTCACGA
GGACGTGAGGCGGACTTCCAGCGACCAGCCTTTCCTGGATGTGATCCAGAACGTGTGCGG
ACTCGAGCATAGGCTGCAGAGACTGAAGGGGGACATGCTATCATCATCAGCAGCACCAGG
CGGCGCTGGAACCACAGAGCGCGACCTGCAGAGCCAACTAGTGGTTCTCGTGCCAACCGC
CGAGCTGAAGGACAAATCACAGCCTGGCATCTGAAATTCCGGGTGCGGATGCGACGCTCC
GTTTGCGTGTTGTCGATAGGAGTTACTAAAACATATAGAAGAAATAGTGTAGAGAAGGAG
AAGAGAAAGAAAAGTAGTGGCTCTAGTCTAGGGTTCTAGCCGACAAGGGGCCTCAACCGT
GGTCGTTACTGTGTGTCACATTGAAGTGCGTCTTCGTTGTTACTTAGTATACAAGGGCAG
TTGTTACTGGTTTTAATGGGTTGGAGTTATATACTTTTCGGGGTTCAAAATGTTTGGTTT
GGAACCATGTCGATGTGCAAACTTTGAGTAACCTCAATTCTCATTTTTTTTCCCATTTTA
CTAAAAAAAATCAGTTTTACCTGCAAGTGAAAATCCGTAGATTCATTTATCGATTTTTGG
GGCGAGATTCAGTTATCGTTATTGCTACTGAGCTAGTATGATATCGCTAGGCAATTCATC
TATTCACTCTCTCGTGCAGCT



Protein Sequence (743 aa)

>BART1_0-u43238.001 743 150831_barley_pseudomolecules
MNNSDKKSVCSIPRRSSERRKPSSSELVSSAKRPTRHNTSSSYKPDHCSPPKRTVRTVRN
VNLAKYVKNKYYRSPLSKRQASNVATGKTATGPVRRRNRKRRRHNTDCDEASRMERRASY
LLVKIKTEQNLIDAYSGDGWNGHSREKLKPDKELQRAKKQIIKCKIAIRDIIHQLDLYSS
SGSMEDSVMPPDESVNPDNTICSRCKSPESVPNNKFIFCEGPCKMAYHQKCSEPPLDKSL
PTGGPGWLCKFCLCKMKILEAVNAHLGMSLTVMCPSKDIFKEATEQMDSEDGLGEDWLSE
YSGDEDYDPEENDFTSSSLDSGEERISDQSNCSGSPLYSPNDDIPGFISADFTDAEGFYH
TNSNLGIDSGDDDAAEMLTYQRPKKEEMFGKLTDNEKQSEDEDWGTSNKRKKRRVDSAGV
GVKSAEGFSDVKSNEKVQPQRRKLFRIPPEAVQVLRKSFAESELPTREVKENLSTELGIS
FEKIDKWFKNTRCAALRDRKAEGNSRVAGPSKRSRRSAGKSGSSGKVDSVDNSYLLPASE
IISVPTHPQGIPERKPESTSRTVRGRVHDKGAPLCLTAKVKESTSPTTKPVLNTHPTHLA
DRIINTEHRAVSQEDTGPSDDPFFDAILSYPTINTSDRAASRDDPVAFEDDPFLDVMLAN
RDIYTEERVASHEDVRRTSSDQPFLDVIQNVCGLEHRLQRLKGDMLSSSAAPGGAGTTER
DLQSQLVVLVPTAELKDKSQPGI