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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTATCAAAGCCATGGAGGATTTCTACAGGGAGATTTATGCCGTCGATGGCATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactcgtatgcctttgtcttctctcccagttactgtatactagtactatataggacacggctgctctgactacttcctccagtcacaaatgtaat...

Basic information

species Zea mays
transcript GRMZM2G089498_T05
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G089498_T05 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g64250.3 (Oryza sativa), 5'ss of exon 2
ACTATCAAAGCCATGGAGGATTTCTACAGGGAGATTTATGCCGTCGATGGCATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactcgtatgcctttgtcttctctcccagttactgtatactagtactata-taggacacggctgctctgactacttcctccagtcacaaatgtaat
|| ||||| ||||||||||| ||||||||||||||||| ||| |||| || |||||   |||||  |||||  | || ||||||||||| |||||||| |||| |       | ||     |  ||||| | | | |||| |    | ||| ||  |||||      | |||  ||| || |  | | |||  |       
ACCATCAAGGCCATGGAGGAGTTCTACAGGGAGATTTACGCCCTCGACGGAATCACCAACATCACCTTCCCGCACCACTACCCTGTCTCCCGCCTCCTCGgtacg-------acgc-----tactctctactactaactgca----actaccatgctaggagttcaattctcatactcctactactactcaatag------

upper sequence: GRMZM2G089498_T05 (Zea mays), 5'ss of exon 2
lower sequence: Vv05s0049g00850.t01 (Vitis vinifera), 5'ss of exon 2
ACTATCAAAGCCATGGAGGATTTCTACAGGGAGATTTATGCCGTCGATGGCATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgta--agcactcgtatgcctttgtcttctctcccagttac-tgtatactagtactatataggacacggctgctctgactacttcctc-cagtcacaaatgtaat
|| |||||||| |||||| |||||||||||||||| ||||| ||  |||| ||  | | | ||||||| || || |||||||| || ||| | ||  | |||      | | || |    || |      |||    ||  | | |  |  | || |||     |   |  || |  |||| |   |  |  || | |   |  
ACAATCAAAGCAATGGAGAATTTCTACAGGGAGATCTATGCTGTGAATGGGATAGCAGACCTCAAGTTTCCAGAACATTACCCAGTTTCAAGACTGTTAGgtgttgctaatggttttgaatttttggaattcctgactagatatgttttcatgctctattattaaaaac--ctatatctacatatccataaacatacacaca--
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|50326695|gb|CO521821.1|CO521821
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|91048273|gb|EB158691.1|EB158691
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|148999237|gb|EE036158.2|EE036158
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|61118910|gb|DN559871.1|DN559871
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|22490117|gb|BU050040.1|BU050040
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|18655109|gb|BM499914.1|BM499914
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|116823319|gb|EC866840.1|EC866840
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|78089237|gb|DV517611.1|DV517611
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|211339502|gb|FL079929.1|FL079929
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|149096017|gb|EE181689.2|EE181689
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|89760219|gb|DY688728.1|DY688728
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|211339503|gb|FL079930.1|FL079930
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCT
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCT
EST: gi|211339500|gb|FL079927.1|FL079927
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|71772228|gb|DR970165.1|DR970165
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|76021650|gb|DT948820.1|DT948820
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|71764548|gb|DR962485.1|DR962485
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|149096384|gb|EE182116.2|EE182116
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|149105991|gb|EE291630.2|EE291630
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|67015730|gb|CO444479.1|CO444479
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCANGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|91875834|gb|EB405791.1|EB405791
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|76935462|gb|DV174333.1|DV174333
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAGGAACTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|50337416|gb|CO532542.1|CO532542
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|76294220|gb|DV033788.1|DV033788
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|149000003|gb|EE037093.2|EE037093
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|91877145|gb|EB407102.1|EB407102
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|149099510|gb|EE185549.2|EE185549
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|71432454|gb|DR813504.1|DR813504
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
EST: gi|71764289|gb|DR962226.1|DR962226
EST:     CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTG                         GCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG
genomic: CATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactc ... tctgccacagGCTGTGTTGAGGTGGTAGGCTGCCTCAGGTCTGAAGAGCTTGTTTGCTGGG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTATCAAAGCCATGGAGGATTTCTACAGGGAGATTTATGCCGTCGATGGCATCACTGGCATCAAGTTCCCTGATCATTACCCTGTCTCACGCCTCCTTGgtaagcactcgtatgcctttgtcttctctcccagttactgtatactagtactatataggacacggctgctctgactacttcctccagtcacaaatgtaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcctcc