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'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aactatgtttgatgaatgccaaaggaaacatattgtcaaatacagatattcaggatagagttcttgttcagttcataacctcatcttgttctgcagacagGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCCGGACAATGCGCTCAATAAAAATAAGTTCAACAGAAGTTTGTCCGTTGCT

Basic information

species Zea mays
transcript GRMZM2G030422_T02
intron # 26
splice site 3'
intron type U2

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|6056921|gb|AW091326.1|AW091326
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|6056921|gb|AW091326.1|AW091326
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|6056921|gb|AW091326.1|AW091326
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|6056921|gb|AW091326.1|AW091326
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|6501179|gb|AW202552.1|AW202552
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         GGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGGAGCC
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacagGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCC
EST: gi|32908130|gb|CF012943.1|CF012943
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32908130|gb|CF012943.1|CF012943
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32908130|gb|CF012943.1|CF012943
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32908130|gb|CF012943.1|CF012943
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|7162284|gb|AW519891.1|AW519891
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTATCCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|7162284|gb|AW519891.1|AW519891
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTATCCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|7162284|gb|AW519891.1|AW519891
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTATCCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|7162284|gb|AW519891.1|AW519891
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTATCCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|83278414|gb|DV942422.1|DV942422
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         GGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGGAGCC
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacagGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCC
EST: gi|213187173|gb|FM183060.1|FM183060
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         GGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGGAGCC
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacagGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCC
EST: gi|32865780|gb|CF005462.1|CF005462
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32865780|gb|CF005462.1|CF005462
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32865780|gb|CF005462.1|CF005462
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32865780|gb|CF005462.1|CF005462
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|14242945|gb|BG840121.2|BG840121
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         GGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCC
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacagGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCC
EST: gi|5608394|gb|AI901971.1|AI901971
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|5608394|gb|AI901971.1|AI901971
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|5608394|gb|AI901971.1|AI901971
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|5608394|gb|AI901971.1|AI901971
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32866447|gb|CF006129.1|CF006129
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         GGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGGAGCC
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacagGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCC
EST: gi|32935018|gb|CF039830.1|CF039830
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32935018|gb|CF039830.1|CF039830
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32935018|gb|CF039830.1|CF039830
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32935018|gb|CF039830.1|CF039830
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|37393773|gb|CF634152.1|CF634152
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         GGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCC
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacagGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCC
EST: gi|32908128|gb|CF012941.1|CF012941
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32908128|gb|CF012941.1|CF012941
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32908128|gb|CF012941.1|CF012941
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-
EST: gi|32908128|gb|CF012941.1|CF012941
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         A
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... ctgcagacag-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattcaggatagagttcttgttcagttcataacctcatcttgttctgcagacagGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCCGGACAATGCGCTCAATAAAAATAAGTTCAACAGAAGTTTGTCCGTTGCT
                           tcataac  putative branch site (score: 2)
                                 cctcatcttgttct  CT-rich tract
                          ttcataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aactatgtttgatgaatgccaaaggaaacatattgtcaaatacagatattcaggatagagttcttgttcagttcataacctcatcttgttctgcagacagGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCCGGACAATGCGCTCAATAAAAATAAGTTCAACAGAAGTTTGTCCGTTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - atgtttg
- - - - - - tgaatgc
- - - - - - - - - - - - -aaacata
- - - - - - - - - - - - - - - - - - -aaataca