Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.021

ChromosomeExonStartStopDirection
chr6H1180782519180781911-
chr6H2180782974180782908-
chr6H3180783208180783085-
chr6H4180783571180783362-
chr6H5180783770180783666-
chr6H6180786158180785988-
chr6H7180786706180786233-
chr6H8180787333180786860-
chr6H9180787580180787451-
chr6H10180787865180787778-
chr6H11180788070180788009-
chr6H12180789166180789050-
chr6H13180789426180789288-


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
morexEMB3.546790.00003328798.65009
morexETI0.00000000031470700.000000000696153
morexLEA2.05850.7618210
morexEPI1.2370800
morexROO0.00000007784422.956982.54839
morexROO20.000001397920.6217330.0000000123957
morexNOD6.273845.712021.46046
morexRAC3.080142.244980.938622
morexINF10.6879440.011662912.1933
morexINF25.2024715.46338.49579
morexCAR56.225998.2964614.5153
morexCAR153.000560.9289376.97653
morexLEM00.0000000001994310.697411
morexLOD3.612652.03570.00000000131274
morexPAL1.76540.7901950
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +3 0.0 549 423/648 (65%) protein|GTPase-activating protein, putative, expressed
TAIR PP10 AT4G13350 @ ARAPORT
AT4G13350.2 @ TAIR		 +2 2e-42 164 71/93 (76%) Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602
BRACH PP3 Bradi3g07910.1.p +3 0.0 711 487/619 (79%) pacid=32814567 transcript=Bradi3g07910.1 locus=Bradi3g07910 ID=Bradi3g07910.1.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 (2770 bp)

>BART1_0-u44239.021 2770 150831_barley_pseudomolecules
CCAGCGAAGCAGCTCAGCGGCGACAACAAAAGAGGGGACCCTTTCCGTTGGTCGCCACCG
CCAACTCGCCTCGGCCCCCGCTCCTCCGCACGCCCGCGCGGGATCTCGCGCTTGCTCCCC
CCCGAGGAGGGCTCTCCCGCAGGGTTTGCGGCGGGCGATGGCGAGCCGGGTGAAGGAGGA
CGAGAAGAACGAGCGGGTAATACGCGGGCTGCTCAAGCTGCCCGCAAACAAGAGGTGCAT
CAACTGCAACAATTTGGGACCACAATATGTATGCACAAATTTCTGGACCTTCGTTTGTAC
CAATTGCAGTGGAGCACACCGAGAGTTCACGCACCGGGTGAAATCTGTTTCCATGGCTAA
ATTTACTGCACAAGAAGTCACTGCTCTACAAGGAGGAGGAAATGAGAATTCTGACCCGTT
CGACTGTTTCCTACGGTCTCAGTAATACGGACAAATTGAGGAATTTCATCAAATATGTTT
ACGTGGAACGGCGATATACAGGAGAAAGAAGCTCTGATAGACCACCGAGGGGAAAGGACG
ATAAGGATGAACATAGCGAAAATAGAAGATCTGATGGAAATCGGGGTGGTTCAAGAAGTC
CACCATATAATGAAAGTTACTCTGACCGTCGGAGTTATAGTGGACGGAGTGATGACAGAA
ATTCCAGACATTCCTATGGAGAACGTAGTCCTGGCTATGACCAGAATGATTATAAGAAAA
GCCCCCGCCACTTTGAAGTTGTCGACGATAGATCTGGGAAAACAACTCCAGTTCAAAGGT
TCGAGGACCGCAGGTTTTCTGAACCACGAAAGCCAGAGACTGGGTCTCCAAATTACCAGA
GAGAAGCCAATGGATCTAGTCCTCCTGTTGTACGGCCAGTGAGGGAGATATTGGGTGATG
ATGCTCCTCAACTTCGGATTGGTGAACCTCCAAAGCCGAATGTAGCCAGACCGATTGACC
CTCCAAAACCAAATGGAGCCAGGACCATTGAACCTCCACCTCAGGCACAGAGGACAGCTA
CTGCCAGCAGCATTGGTTCTTCCGAGGGGATTTCGGAACAGACGAAGGCAGTAACTCCAG
TCAGTTTAATTGATTTTGGTGCAGATCCCGAACCTACTGCATCTGCCCTGCCATCACAGA
CAGCCCCTACACCCCAGCAGCAGTCAGTTAATGCACAGCCTATTAACACAACAGCGCCAC
AACATGTTCTTGAACAAGGCAGAAGTGCTCCATCAGTGAGCGGCGGTGATTGGGCATCTT
TTGATGCTTTTGGCCAGCAACAACAAACACCACAATCAGGCAGCACTGTAAATCCGCTTG
AGTCTGTGCTTGCACAACTATCATTCTCTGAAACACCCTCTGCCTCCAGTACATCAGCCT
TTTCAACTTCTGTTGATCAGCAAGCAAATGGAGGACAGTCATCCATGATAGATCCATCAC
ATTCTTCATTATTTGGTCCACCCGTTGGAATCTCAGGCAATCAGGCCTCAACAGGAATGC
CCGTCCAAGGATCTGCAGTTCATCAATCTGCTGTGGCTGCCCCTATGGGTGGTCTTCCAT
CTCTATTGCCTTCAAATTCTCAAGGAACAAGTGGTATTCAAGAAGCAACGTCTTCTCATG
ACAGCAAATCCAGTGGGCGGACAGCACTTCCAGTGGATTTCTTTACTTCACTTTATCCAT
CAGCAACTCCAGCAATGCCTGGCTGGCAGAGAGCTCCCCAGTCTGGAATGGGATTTGGCA
TGCAGTATCCTGCCGGAATGTTGCAGGGAATGCAGTCATATCCTCAGGCAGCATTTTCTC
AACCTACATATCAACAGCCTACATATCAGCAACCTATGTATCAGCAACCTACATACCAAC
AACCTACGTATCAACAGCCTGTATATCAGCAAAATGCATATCCCCAACCTGCGAAAGCTT
CAAACCCTTTTGACCTCGGAAATGAGGCAGCTCCAATTCAAGCTCACATGCAGTCCCTAT
CTGGACCACTGGGAGCATCAGCAGGCGCTGCTAACCCAACATTAGTTGGTAACTCTAGTT
TTGGAGTTCCACCTCAGCAGCCTCAGCAGATGTATCAGCCACCTGTACATCAAAACCATT
ACATGATGCAGCATGTTTCAAACAACATGCCTGAGCAGCTACCTAATGGCATGCTTCCAA
GGCAACAAGGAGGGGCTGGTTCCCTCGGCGTCGGATATGATCAACAAGCTGCCCCTAGGT
ACTCCCAGCCAAGCACCCCACCTTCATATGGTGCTGTCGGTGGAAATCCTTTTGGGTAAA
AAAGGCTTATCAAATGTGGACGTACCATGTTACCTGTTTATGGTATCTTATGTATCTTCA
GACCACTGGTGTGTAGTGCCCACTGCCCAGTGAGACCAGAATGCACAAAGCCCTGGAGAA
AAATTTGTTTCATATTTACTGGTCATGTGTTCTGTCACTGTAGCTCCGTGTAACTTGGTC
TGGGAGGTGGAAGCGACGTGGTGCATAAGCTTCAGGAGCAGTAGTTCGGTGCTTCTAGCC
CCTATTTTCTTGTATATTTGTGTTTGGTGTTCTGTATGCGTTGCCTCCGATGTATATTCA
CAGAGACCCTATGCCTTGTATGGTTTTTGATTGGGATCTTTCGAGCGGCCCTATCTGATA
GTGTACTTAGCTCAGAATGTTACTTTTAGTCATGCTGGGTATTCAATTTTAATGTTTATT
GCAATGTCGGACTGAAGGTTGTATAACTGTGGTTAATCAGTTGTTTTGGTCTCACGCTAT
TGCATTACGG



Protein Sequence (625 aa)

>BART1_0-u44239.021 625 150831_barley_pseudomolecules
MRILTRSTVSYGLSNTDKLRNFIKYVYVERRYTGERSSDRPPRGKDDKDEHSENRRSDGN
RGGSRSPPYNESYSDRRSYSGRSDDRNSRHSYGERSPGYDQNDYKKSPRHFEVVDDRSGK
TTPVQRFEDRRFSEPRKPETGSPNYQREANGSSPPVVRPVREILGDDAPQLRIGEPPKPN
VARPIDPPKPNGARTIEPPPQAQRTATASSIGSSEGISEQTKAVTPVSLIDFGADPEPTA
SALPSQTAPTPQQQSVNAQPINTTAPQHVLEQGRSAPSVSGGDWASFDAFGQQQQTPQSG
STVNPLESVLAQLSFSETPSASSTSAFSTSVDQQANGGQSSMIDPSHSSLFGPPVGISGN
QASTGMPVQGSAVHQSAVAAPMGGLPSLLPSNSQGTSGIQEATSSHDSKSSGRTALPVDF
FTSLYPSATPAMPGWQRAPQSGMGFGMQYPAGMLQGMQSYPQAAFSQPTYQQPTYQQPMY
QQPTYQQPTYQQPVYQQNAYPQPAKASNPFDLGNEAAPIQAHMQSLSGPLGASAGAANPT
LVGNSSFGVPPQQPQQMYQPPVHQNHYMMQHVSNNMPEQLPNGMLPRQQGGAGSLGVGYD
QQAAPRYSQPSTPPSYGAVGGNPFG