Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaagttgatgtttgactcattcaatgaaaatggcatagttgtgctaaattttgagctctgtggcctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAGGTTCAGCATTGGTGTGGAGGATTTCGAGGATCTTAAGAACGATCTCGTG

Basic information

species Zea mays
transcript GRMZM2G075153_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G075153_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os03g25940.2 (Oryza sativa), 3'ss of exon 10
gtaagaa--gttgatgttt-gactcattcaatgaaaatggcatagttgtgctaaattttgagctctgtggcctgtaa--acagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAGGTTCAGCATTGGTGTGGAGGATTTCGAGGATCTTAAGAACGATCTCGTG
||| | |  ||| || ||| | | ||||||  || |||     | |       ||  |   |||  ||      | |  |||||||||||||||||||| | || ||||| || |||||||||||| ||||||||||||||||||| ||||||||||| |||||| | ||||| ||  | || 
gtatggactgttcatattttgtcacattca--gataatcaatcaatcaaaaagaacatgttgctgagttatgaatcattacagGGATTCAAAGGAGCAGAGAGAAATCTATGGAATCAAGGACAACTTGATCAGGTTCAGCATTGGAGTGGAGGATTTTGAGGATTTGAAGAATGACGTTGTT
















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|89248894|gb|DY620680.1|DY620680
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|60395696|gb|DN228566.1|DN228566
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|5847526|gb|AW000605.1|AW000605
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|4804475|gb|AI665345.2|AI665345
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|5055402|gb|AI734289.1|AI734289
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|9825106|gb|BE575308.1|BE575308
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|60397682|gb|DN230498.1|DN230498
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|6020582|gb|AW065615.1|AW065615
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|5525742|gb|AI861635.1|AI861635
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|5847377|gb|AW000456.1|AW000456
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|88750228|gb|DY534369.1|DY534369
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|76291941|gb|DV031509.1|DV031509
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|76933172|gb|DV173351.1|DV173351
EST:     TTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATTGTCCTACTG                         GGATTTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCA
genomic: TTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCA-TGTCCTACTGgtaagaagtt ... ctgtaaacagGGA-TTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCA
EST: gi|211484408|gb|FL480088.1|FL480088
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|67012003|gb|CO440752.1|CO440752
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTATGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|5791174|gb|AI977966.1|AI977966
EST:     GTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: GTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|148933982|gb|EC877980.2|EC877980
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|13515896|gb|BG518172.1|BG518172
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACATGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|71419167|gb|DR804675.1|DR804675
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|32795936|gb|CD948172.1|CD948172
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|16379839|gb|BI993172.1|BI993172
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACNGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|4624372|gb|AI615205.1|AI615205
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|29946122|gb|CB815990.1|CB815990
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|60352254|gb|DN219227.1|DN219227
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|71763831|gb|DR961768.1|DR961768
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|113823418|gb|DW940910.1|DW940910
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGG
EST: gi|211038907|gb|FL471521.1|FL471521
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|213192843|gb|FM182914.1|FM182914
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|67012102|gb|CO440851.1|CO440851
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTATGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
EST: gi|30705989|gb|CD058994.1|CD058994
EST:     TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTG                         GGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG
genomic: TTTGGAGGCTGTGAGAGCATAATTGATCAGCCTGCCATCATGTCCTACTGgtaagaagtt ... ctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaatgaaaatggcatagttgtgctaaattttgagctctgtggcctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAGGTTCAGCATTGGTGTGGAGGATTTCGAGGATCTTAAGAACGATCTCGTG
                      tgctaaa  putative branch site (score: 2)
                         taaattttga  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaagttgatgtttgactcattcaatgaaaatggcatagttgtgctaaattttgagctctgtggcctgtaaacagGGATTCAAAGGAGCAGCGGGACATCTACGGGATCAAGGACAACCTGATCAGGTTCAGCATTGGTGTGGAGGATTTCGAGGATCTTAAGAACGATCTCGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC