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

GCTGGAGAGAAGGCAGTAGGGTGTGGAGTTATCCATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAAgtatcccactttcttttccagatgctaagttttagaatacttgtaataatctcaattaatgttgacttgcccgctgtcaaatcag

Basic information

species Zea mays
transcript GRMZM2G300862_T02
intron # 2
splice site 5'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G300862_T05 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g70300.3 (Oryza sativa), 5'ss of exon 2
GCTGGAGAGAAGGCAGTAGGGTGTGGAGTTATCCATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAAgtatcccactttcttttccagatgctaagttttagaatacttgtaataatctcaattaatgttgacttgcccgctgtcaaatcag
||||| ||||||||||| || || || || |||| |||||| ||||| |||||||||||| || |||||   ||||| || ||||    |   | |||||| |   | | | |  |  ||   || |  |||| ||| || ||| |  |||    ||| ||||  |||
GCTGGTGAGAAGGCAGTGGGATGCGGCGTGATCCGTGTTTCGGAAATTGAAGAGTGGAATTTGATCAAAGATCTACACATTAAgtgagtc---tacttttcaaacagtttactggtcaaactgttttc-taatttcacttgatggtttctt---tgctatcaatccag
















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|149101054|gb|EE187152.2|EE187152
EST:     CATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAA                         GACGGTGGATGAACTTGGACTTCCCAGATCTGTAATACAAG
genomic: CATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAAgtatcccact ... gtcaaatcagGACGGTGGATGAACTTGGACTTCCAAGATCTGTAATACAAG
EST: gi|148963037|gb|EE013988.2|EE013988
EST:     CATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAA                         GACGGTGGATGAACTTGGACTTCCAAGATCTGTAATACAAG
genomic: CATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAAgtatcccact ... gtcaaatcagGACGGTGGATGAACTTGGACTTCCAAGATCTGTAATACAAG
EST: gi|149104118|gb|EE289550.2|EE289550
EST:     CATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAA                         GACGGTGGATGAACTTGGACTTCCAAGATCTGTAATACAAG
genomic: CATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAAgtatcccact ... gtcaaatcagGACGGTGGATGAACTTGGACTTCCAAGATCTGTAATACAAG
EST: gi|50338980|gb|CO534106.1|CO534106
EST:     CATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAA                         GACGGTGGATGAACTTGGACTTCCAAGATCTGTAATACAAG
genomic: CATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAAgtatcccact ... gtcaaatcagGACGGTGGATGAACTTGGACTTCCAAGATCTGTAATACAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTGGAGAGAAGGCAGTAGGGTGTGGAGTTATCCATGTTTCTGAAATCGAAGAGTGGAATATGGTCAAAAGCCTACATATCAAgtatcccactttcttttccagatgctaagttttagaatacttgtaataatctcaattaatgttgacttgcccgctgtcaaatcag

- - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA