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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTACGCAAAACGATTTTTGCATCCCGACGTTGTTGCCAGATATGATTACATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAAgtaagcactacatatttgcattcttgttttctttctgttcagttggtgttcatttttattaagatgcccttgctatttttacag

Basic information

species Zea mays
transcript GRMZM2G006507_T03
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006507_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os02g19510.1 (Oryza sativa), 5'ss of exon 8
GGTACGCAAAACGATTTTTGCATCCCGACGTTGTTGCCAGATATGATTACATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAAgtaagcactacatatttgcattcttgttttctttctgttcagttggtgttcatttttattaagatgcccttgctatt--tttacag
|||| ||||| || ||||||||||| || ||||||||| ||||||| ||||| ||||||||||||||||| |||||||| || |||||||||||||||||||||| ||| ||| ||||        |  | | |||||| |  | ||||||   ||   |  |||    ||  || |  ||| |||
GGTATGCAAAGCGGTTTTTGCATCCTGATGTTGTTGCCCGATATGACTACATATTCATCTGGGATGAGGACCTAGGTGTTGAGCATTTCAATGCAGAGAAgtaagaactgcatttttgt-------tcctttatctgttgaccttgtgttccacttgggtgcgattatgtttgtactctttttcag

upper sequence: GRMZM2G006507_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA13G39990.1 (Glycine max), 5'ss of exon 8
GGTACGCAAAACGATTTTTGCATCCCGACGTTGTTGCCAGATATGATTACATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAAgtaagcactacatatttgcattcttgttttctttc-tgttcagttggtgttcatttttattaagatgcccttgctatttttacag
|||| || ||| |||||||||| || ||  | ||  |    ||||| || ||||| || |||||||| ||||| || |||||||| ||||||||||| |||||     | ||| | |  | |||  |    |||  | || |       || | ||| |||||    |  |      ||   |||
GGTATGCTAAAAGATTTTTGCACCCTGATATAGTATCAGCTTATGAATATATTTTTATTTGGGATGAAGATCTTGGAGTAGAACACTTCAATGCAGACAAgtattattttcatctgtctaatctgctcaaatttgatatttatgcaacttttagtttaattaattgactgtattctattccccag

upper sequence: GRMZM2G006507_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA12G29800.1 (Glycine max), 5'ss of exon 8
GGTACGCAAAACGATTTTTGCATCCCGACGTTGTTGCCAGATATGATTACATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAAgtaagcactacatatttgcattcttgttttctttc-tgttcagttggtgttcatttttattaagatgcccttgctatttttacag-
|||| || ||| |||||||||| || ||  | ||  |    ||||| || ||||| || |||||||| ||||| || |||||||| ||||||||||| |||||     | ||| | |  | |||  |    |||  | || |       || | ||| |||||  |  |  |  | | || ||   
GGTATGCTAAAAGATTTTTGCACCCTGATATAGTATCAGCTTATGAATATATTTTTATTTGGGATGAAGATCTTGGAGTAGAACACTTCAATGCAGACAAgtattattttcatctgtctagtctgctcaaatttgatatttatgcaacttttagtttaattaat-taactgtattctattcaccag

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|87153082|gb|DY397871.1|DY397871
EST:     ATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAA                         GTACATTGAGCTTGTTCGAAAGCATGGGTTGGAAATCTCTCAGCCTGGTTT
genomic: ATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAAgtaagcacta ... atttttacagGTACATTGAGCTTGTTCGAAAGCATGGGTTGGAAATCTCTCAGCCTGGTTT
EST: gi|18964823|gb|BM661216.1|BM661216
EST:     ATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAA                         GTACATTGAGCTTGTTCGAAAGCATGGGTTGGAAATCTCTCAGCCTGGTTT
genomic: ATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAAgtaagcacta ... atttttacagGTACATTGAGCTTGTTCGAAAGCATGGGTTGGAAATCTCTCAGCCTGGTTT
EST: gi|31348516|gb|CD432873.1|CD432873
EST:     ATTTTCATCTGGGATGAGGATCTACTTGTAGAACATTTCAATGCAGAGAA                         GTACATTGAGCTTGTTCGAAAGCATGGGTTGGAAATCTCTCAGCCTCGTTT
genomic: ATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAAgtaagcacta ... atttttacagGTACATTGAGCTTGTTCGAAAGCATGGGTTGGAAATCTCTCAGCCTGGTTT
EST: gi|22490474|gb|BU050397.1|BU050397
EST:     ATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAA                         GTACATTGAGCTTGTTCGAAAGCATGGGTTGGAAATCTCTCAGCCTGGTTT
genomic: ATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAAgtaagcacta ... atttttacagGTACATTGAGCTTGTTCGAAAGCATGGGTTGGAAATCTCTCAGCCTGGTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTACGCAAAACGATTTTTGCATCCCGACGTTGTTGCCAGATATGATTACATTTTCATCTGGGATGAGGATCTAGGTGTAGAACATTTCAATGCAGAGAAgtaagcactacatatttgcattcttgttttctttctgttcagttggtgttcatttttattaagatgcccttgctatttttacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT