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'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acattatactgggaggacggtcattctctccctagccaagtttatattgtgaatgtgaagtcgtgatttatgatttttatttggctcttgataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG

Basic information

species Zea mays
transcript GRMZM2G373175_T01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G373175_T01 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 9
acattatactgggaggacgg-tcattctctccctagcc------aagtttatattgtg-aatgtgaagtcgtgatttatgatttttatttggctcttgataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG
      ||   |||||| |  | ||||      || |       ||||  || |||     | | || ||   | | ||   |||| ||  ||||||||||||  ||||||||||||||||| || || |||||||||||||| ||||| || || |||||||| |||
------tatgtggaggatgactgattccaatattaacttcttataagtcaatgttgaatgctttaaattccctaatcattggttttgtt--gctcttgataatcacagAACAAGGAGAAATCAATTTCTCTCAAGACAATGGAGGATGGGCAAGTCATGCTTTACTCG
















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|211272990|gb|FL022928.1|FL022928
EST:     TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTG                         AACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
genomic: TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTGgtgagtttct ... ataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
EST: gi|211272993|gb|FL022931.1|FL022931
EST:     TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTG                         AACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
genomic: TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTGgtgagtttct ... ataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
EST: gi|211272997|gb|FL022935.1|FL022935
EST:     TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTG                         AACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
genomic: TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTGgtgagtttct ... ataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
EST: gi|211272995|gb|FL022933.1|FL022933
EST:     TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTG                         AACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
genomic: TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTGgtgagtttct ... ataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
EST: gi|211272996|gb|FL022934.1|FL022934
EST:     TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTG                         AACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
genomic: TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTGgtgagtttct ... ataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
EST: gi|211272991|gb|FL022929.1|FL022929
EST:     TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTG                         AACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
genomic: TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTGgtgagtttct ... ataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
EST: gi|211272994|gb|FL022932.1|FL022932
EST:     TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTG                         AACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
genomic: TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTGgtgagtttct ... ataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
EST: gi|211272992|gb|FL022930.1|FL022930
EST:     TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTG                         AACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG
genomic: TTCGGGCGGTAATTTGTGCAGGACTGTATCCAGGTGTTTCCTCTGTTTTGgtgagtttct ... ataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgtgaatgtgaagtcgtgatttatgatttttatttggctcttgataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG
                                        tcttgat  putative branch site (score: 4)
                  tgatttatgattttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acattatactgggaggacggtcattctctccctagccaagtttatattgtgaatgtgaagtcgtgatttatgatttttatttggctcttgataatttcagAACAAGGAGAAATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - tactggg
- - - - - - - - - - -cattctc
- - - - - - - - - - - - - - - - - - - - - - - - gtgaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctcttg