Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u51812.025

ChromosomeExonStartStopDirection
chr7H1140679678140679415+
chr7H2140680207140680127+
chr7H3140680803140680682+
chr7H4140681781140681165+
chr7H5140683178140681885+
chr7H6140683501140683422+
chr7H7140684053140683958+
chr7H8140684216140684143+
chr7H9140684701140684566+
chr7H10140685417140684971+


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
morexEMB0.0001113470.005784980
morexETI000
morexLEA0.7111670.00000162990
morexEPI000.00000000856199
morexROO00.0003438910.0000129947
morexROO200.02521670
morexNOD0.000000010251400
morexRAC0.1130200
morexINF13.936132.983032.83644
morexINF26.896260.000000002009740.0000923768
morexCAR500.7515511.43592
morexCAR153.4392300
morexLEM00.00000001336260
morexLOD0.000000014452100
morexPAL000
morexSEN00.000000002781920



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os06g19470.2 +3 0.0 641 439/691 (64%) protein|WW domain containing protein, expressed
TAIR PP10 AT3G13225 @ ARAPORT
AT3G13225.1 @ TAIR		 +2 1e-31 133 88/146 (60%) Symbols: | WW domain-containing protein | chr3:4258928-4261728 REVERSE LENGTH=771
BRACH PP3 Bradi1g43210.1.p +3 0.0 772 511/697 (73%) pacid=32799652 transcript=Bradi1g43210.1 locus=Bradi1g43210 ID=Bradi1g43210.1.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 (3211 bp)

>BART1_0-u51812.025 3211 150831_barley_pseudomolecules
CCGGACACCCGCCTACCGCCAGCTCCCTCCACTTCGCCTCTCCTCCTGATTCGCACCGCT
TCCCTTTTTGCCGTAAAACAAAACACCCCGACGTCACCCTCCAAACCCTAACCCTAGAAT
CTAGAAGACGTCCATCTCCACCCCCGGCGCGCGCCCGACTACTCGGGGCAGCGGCGATGG
GGAGGCGGAAGGAGCGCCGCCTGGCGGCCAAGGCGGCCTCGGGCCGTAGGGTCAAGCTCG
ACCTCTTCCTCGATCCTTCCCCCGGGGAGGCATCTACTAAAGAGGGAGTAGGGGAGGAAA
ACCGCGAGCAGCAAACTGGTGTTCCCACTTCACCATCTTCGTCAGATAAGAAGGAAAATC
CTCTAGCGTTGCTTGGGCAATATAGTGATGATGAAGAAGAGGATGAAGTAGCAACAGATC
AACCCAATGGTGAAACTAAGGGAAGTTCAACTGATGCAAGTGCCAAGGTTTTTAACGATC
ATGGTGATGTAACTGGGGATAAAGGCGATGCAGATAGTGAACTGCCTGCTTCTGTTAGTG
TTCAGCAGGAAGCATCTCAAGCCGATGATGTAAAAACTATCACAGAAAATGTTGCTGAGG
AATTTACTGTTGCCCCTGAGCCAACTCTGGAAAATGAGTGTGTGACAGTAATGGAAGCTG
TCCCAGATTCATCTGGCATGCAAATCGTGGGTGACATTGGTGGGAATTGGAAGGCTATAA
TGCATGAACAAAGTAATCAGTGTTACTACTGGAACACAGTTACAGGAGAAACTTCTTGGG
AGATTCCTGATGGATTAGCTTCGGGGGTTGCTGGTGATGGAGTCACTTCTGCATCTGTGC
CTACTCATATGGGCTACTCTGTAGAAGCTCAAGCACATGTCCTTCCCCACAGCAATGTTG
AAGCATATCCTAGTGATGTATCTGTTGGGAATGGCACAGCAACCTATACTGCTATGGGAA
CTTATACTCATGATGCTTATGCTTACACTGGAGCCGTCGCTAGTCATGAGTCAGTGGACA
TTGACCCCTTGCAGCTTGCAAAATATGGTGAGGATTTACTGCAAAGATTGAAGCTGCTGG
AAAGGCCACATGTTGCCATTGACAGTCTTGAGTTGATAAAAAGAGAAATTGAGATACGAG
TAGCAGACTGTAATGCACTCTCCTCGTATGGATCTTCTTTACTTCCATTGTGGTTGCATG
CTGAGGTGCACCTTAAGCAACTAGAACTTTCAGTTTCCAAGTTTGAAGCTAGCTACACTA
CCAGACATGGATATCTGGAGACGGTGGATGCAGGACACAAAGCACCTAATGAAGCTAAAG
TTATGGCACCCTCCGAGGGTGAGCATTTGAAAGTTGATGTTAGCACTCTGGGAATTGGTA
CTGGCGATGAAAATATTAAGGTTGAGGAACCATGTACAACATCATCTGCTCAGAACTCAC
AATGTGTGGCAGCAGCTATTTTAAGAGTTGAATCAGACAGTGATGAAGATATGGACGTGG
ACATGGAGGTCGATGAAGAAGGTGTTGAAGAGCACGGCGGATTCACTTCTATGCCAAATA
AGGAGCATCCTTCATCAGAGCAAGTACGATCACCAGCTTTGTCATCATTGGAAGACTCTG
CTCCTCCCCAACAGGATAATGACATTCCTCCTCCACCACCACCACCAGAAGAGGAATGGA
TTCCACCTCCACCACCGGAGAATGAACCAGCTCCTCCACCTCCTCCTGAGCCTGAAGAGC
CTGCTGTGTCATTTGTTCATGCTGATACACTTCCTCAGCCATACGGAGGTCAAGCAAACT
TGGGTTATATGCTTCCAGGAATGGAGTACTATCCCGCTTCTGGTACAGATGGCACAAATG
CCAGCTACTATATGCAAGCGAGCGATTCTCATATTCTTCAATCGCAGCAGCATTCTTACT
ACGCACCGTTGTCTGCAAGTGGCGTATCTATTCCTGTTGAGACCACATCGATCCCCCCAG
TACCAGGTTCTTATTATAGCTATCCTTCTGTCACTATGGCTGCCACTGAAGTAGCGGCTG
AATCTTCTGGATACTATGGTTCATCAACCTCTGCCATTTCTAGCGGTGAATTAGATAACA
AAACAAGCTCAGCCTCCCTTGTTTCAAATAGTAATGTGAATCCTGTGGAGTCTGATAAAG
TGATATCCAAGGAGCCTACAGTTGTTTCTTTGAGCCAATCAGTAGGGGCAGCCTCAGCTT
CAGCACCAACAGTACATGGTAGTTCTACTCTAGCTTCTACTAGTACCACTAATCAGACTA
AAGGTAATTTATTATTCTTTGCAAGGATACTTAATGTTACTAGCTCGTACATGGTAGTTC
TACTCTAGCTTCTACTAGTACCACTAATCAGACTAAAGTTCCTCGTACTAAGAAGCGACC
TGTTGCTGTTGCATCATCACTGAGATCTAATAAGAAGGTCTCAAGTCTGGTGGATAAGTG
GAAAGCTGCAAAAGAGGAGCTTTGTGATGAAGAGGAAGAGGAGCCTGAAGATGCTTTGGA
GTACCTAGAAAGGAAACGTCGGAAGGAAATAGATGGGTGGCGTAAGCAACAAATAGCTAG
TGGAGAAGCTAAGGAAAATGCTAATTTTGTTCCCCTTGGCGGTAACTGGCGTGACCGTGT
AAAACGCAAAAGAGCTGAAGCAAAGAAGGAAGCAAAGACTGAATCTGTTTGTGCAGCTGC
CGAACAACACAAAGGAGAGCCTGATCTCTCAGAGCTTTCCAAGGGTCTCCCTTCTGGGTG
GCAGGCATACATAGACGAGTCTACGAAGCAAGTGTACTATGGGAACAACCTCACTTCCGA
GACTACTTGGGATCGGCCTAGCAAATAAAGATTGAACTAGTTGAAGATGGTCCAGTTTTG
CTCTGTAGATATCCTCATACATCTATACGTTGCCTGTCTGGTTATGAGGCTGTATTGTTT
CTTTTATTTTCCACTGGGAGATCGTAGCAGGAAGGATACTTCATTTTGGTATATAGAGGC
ATCCCTTGTAAGAGTGGCAACTTGAGATCGAATTACTGAAGCAAAAAATACTAGTTAGTT
GCTGACCAAGGAAAAATGTGCCTTGTTAAGTGGTGGGAGTCTTTACCTCGATCTGATACC
ATTTGCTTTCAAAACAATGTCAATTATATTCGATTTTAGGTTGTGCTAAATTCTAGACTT
CTCCAATTATTTAACATTAGAAAGAAAGATG



Protein Sequence (723 aa)

>BART1_0-u51812.025 723 150831_barley_pseudomolecules
MGRRKERRLAAKAASGRRVKLDLFLDPSPGEASTKEGVGEENREQQTGVPTSPSSSDKKE
NPLALLGQYSDDEEEDEVATDQPNGETKGSSTDASAKVFNDHGDVTGDKGDADSELPASV
SVQQEASQADDVKTITENVAEEFTVAPEPTLENECVTVMEAVPDSSGMQIVGDIGGNWKA
IMHEQSNQCYYWNTVTGETSWEIPDGLASGVAGDGVTSASVPTHMGYSVEAQAHVLPHSN
VEAYPSDVSVGNGTATYTAMGTYTHDAYAYTGAVASHESVDIDPLQLAKYGEDLLQRLKL
LERPHVAIDSLELIKREIEIRVADCNALSSYGSSLLPLWLHAEVHLKQLELSVSKFEASY
TTRHGYLETVDAGHKAPNEAKVMAPSEGEHLKVDVSTLGIGTGDENIKVEEPCTTSSAQN
SQCVAAAILRVESDSDEDMDVDMEVDEEGVEEHGGFTSMPNKEHPSSEQVRSPALSSLED
SAPPQQDNDIPPPPPPPEEEWIPPPPPENEPAPPPPPEPEEPAVSFVHADTLPQPYGGQA
NLGYMLPGMEYYPASGTDGTNASYYMQASDSHILQSQQHSYYAPLSASGVSIPVETTSIP
PVPGSYYSYPSVTMAATEVAAESSGYYGSSTSAISSGELDNKTSSASLVSNSNVNPVESD
KVISKEPTVVSLSQSVGAASASAPTVHGSSTLASTSTTNQTKGNLLFFARILNVTSSYMV
VLL