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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTCTTGTTTCAGTGCTGAGATGCTGGTAAACCTGCAGGTGCCCTGGGTCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaaccttttaaactcaagttgctgttgatttattttagctgacatgatctgatttatcttctctattgacaactcacattcctgtgttattttgct...

Basic information

species Zea mays
transcript GRMZM2G146206_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146206_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os01g62420.2 (Oryza sativa), 5'ss of exon 4
GTTTTCTTGTTTCAGTGCTGAGATGCTGGTAAACCTGCAGGTGCCCTGGGTCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaaccttttaaact--caagttgctgttgatttattttagctgacatgatctgatttatcttctctattgacaactcacattcctgtgttattttgct
               ||| |||||| |||| |||||||||||||| ||||| ||| ||||||| |||||||| ||||| ||| |||| ||||| |||||||||||  | || || | |  | ||   |    ||||| ||||   || || | | |     | ||    |   | || ||     |   |         |  
---------------TGCCGAGATGTTGGTGAACCTGCAGGTGCCTTGGGTGATTCTGGGACACTCTGAGCGGAGAGCGCTGATGGGCGAATCAAGTGATgtgagttctttctacattgtctagaaacataggattttttttca-tgtca-gctttatagcaactagaatgcgggcagctactggtttagcaaggccaggaa
















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|31352539|gb|CD436896.1|CD436896
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|71757929|gb|DR955866.1|DR955866
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|16919933|gb|BM074427.1|BM074427
EST:     TGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|24767602|gb|CA402746.1|CA402746
EST:     AGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: AGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|211116000|gb|FL153558.1|FL153558
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|149097485|gb|EE183357.2|EE183357
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|32909130|gb|CF013942.1|CF013942
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|71330644|gb|DR802095.1|DR802095
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAC                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|110517584|gb|EE022171.1|EE022171
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTTCTTGTTTCAGTGCTGAGATGCTGGTAAACCTGCAGGTGCCCTGGGTCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaaccttttaaactcaagttgctgttgatttattttagctgacatgatctgatttatcttctctattgacaactcacattcctgtgttattttgct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT