Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAGGACCAGAGGCTTCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacatgccctgctctagtcctgagcccatatgacatcttcatatactaactgatgctgaatgctactaccatcatggacatccag

Basic information

species Zea mays
transcript GRMZM2G165998_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165998_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g06620.1 (Oryza sativa), 5'ss of exon 2
GAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAGGACCAGAGGCTTCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacatgccctgctctag-----tcctgagcccatatgacatcttcatatactaactgatgctgaatg--ctactaccatcatggacatccag-----------------------
||||||||| |||| ||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||   ||||||||| ||||||| |||    ||||| |      |  | |||   | | ||    || ||    ||||  |||  |||   | |  | | |    ||  |  |                        
GAGGTCATCGAAGCTTGGTACATGGATGACAGTGAAGAGGACCAGAGGCTTCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTTAGCAAACTTTCAGgtttgtgcatctattgctcaaacaatatgtttagcttttgtaactaactcttagtagaactagtgccaaattgccaaaaaacttgccagatgttaatgtggtgcacaattgatacaccag
















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|32916516|gb|CF021328.1|CF021328
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32915127|gb|CF019939.1|CF019939
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32910309|gb|CF015121.1|CF015121
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211136266|gb|FL235028.1|FL235028
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|42491995|gb|CK701041.1|CK701041
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32918894|gb|CF023706.1|CF023706
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGGATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211137227|gb|FL235054.1|FL235054
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211137217|gb|FL235044.1|FL235044
EST:     TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211136272|gb|FL235034.1|FL235034
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATCCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32858130|gb|CD997811.1|CD997811
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|5895571|gb|AW036817.1|AW036817
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211136265|gb|FL235027.1|FL235027
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32851451|gb|CD991132.1|CD991132
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211136269|gb|FL235031.1|FL235031
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32915396|gb|CF020208.1|CF020208
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32910482|gb|CF015294.1|CF015294
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|31611894|gb|CD568516.1|CD568516
EST:     TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211137218|gb|FL235045.1|FL235045
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|9731247|gb|BE509999.1|BE509999
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32916506|gb|CF021318.1|CF021318
EST:     TCCTCATCATCGGGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32864327|gb|CF004009.1|CF004009
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAA
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAA
EST: gi|32916207|gb|CF021019.1|CF021019
EST:     TCCTCATCATCGGGAGGCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|111990462|gb|EE331881.1|EE331881
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|74034874|gb|DT535365.1|DT535365
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211135335|gb|FL235023.1|FL235023
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211137219|gb|FL235046.1|FL235046
EST:     TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|193502968|gb|AM938541.1|AM938541
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|40287017|gb|CK327409.1|CK327409
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211137220|gb|FL235047.1|FL235047
EST:     TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211136278|gb|FL235040.1|FL235040
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211137222|gb|FL235049.1|FL235049
EST:     TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32868008|gb|CF007690.1|CF007690
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|71770494|gb|DR968431.1|DR968431
EST:     TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|211137225|gb|FL235052.1|FL235052
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATCCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|108824274|gb|EC278282.1|EC278282
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32933164|gb|CF037976.1|CF037976
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
EST: gi|32858765|gb|CD998446.1|CD998446
EST:     TCCTCATCATCGCGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCG                         AACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG
genomic: TCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacat ... ggacatccagAACTAGGAATATTAAGCTGGCGCCTAAATGCTGATGATTGGGAGAATGATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAGGACCAGAGGCTTCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCGACAAACTTTCCGgtttgtacatgccctgctctagtcctgagcccatatgacatcttcatatactaactgatgctgaatgctactaccatcatggacatccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA