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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcctcaaaacttctcgtgcaccttcaagaactattaagttgccatctgcaagcactgagctcaaacttggaacctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACGGCACTGGAAGTAGCTCTTTCAGTTATTCGTGCTAATCCTGCAGTTTTGG

Basic information

species Zea mays
transcript GRMZM2G163193_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G163193_T03 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os02g43350.1 (Oryza sativa), 3'ss of exon 11
-------------gtttgcctcaaaacttctcgtgcaccttcaagaactattaagttgccatctgcaagcactgagctcaaacttggaacctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACGGCACTGGAAGTAGCTCTTTCAGTTATTCGTGCTAATCCTGCAGTTTTGG
              ||||    ||||    ||      | | |  ||    |||| | ||||||||| | | || ||||| |||   || |||||| ||||||||||||||||| || || ||| ||||||||||||| ||| | ||  | || || || || |||||||||||| | |||||||||||| |||||||||
tatgaatttactcttttggaaaaaaaaaagtctctttgcctgacaaatgcgtaagctaccatctgcatgtattgtgctcacactgcaaaactaatgacagGGCCATCTAGTTGACCTTGTCCAGCGGGAAGTAAAAGCCCTTCTTCAATCAGCCCTTGATGTCGCTCTTTCAGTTGTCCGTGCTAATCCTACAGTTTTGG
















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|67029785|gb|CO458534.1|CO458534
EST:     TGACTCTGGTGTTTCTCCATGGGNGAAGAGATCAG                         GGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAATAGCGCTTTTACAGACG
genomic: TGACTCTGGTGGTTCTCCATGGG-GAAGAGATCAGgtttgcctca ... ctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
EST: gi|78121515|gb|DV539899.1|DV539899
EST:     CAAATGGTGGGTTAGATGACTCTGGTGGTTCTCCATGGGGAAGAGATCAG                         GGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
genomic: CAAATGGTGGGTTAGATGACTCTGGTGGTTCTCCATGGGGAAGAGATCAGgtttgcctca ... ctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
EST: gi|71449715|gb|DR830765.1|DR830765
EST:     CAAATGGTGGGTTAGATGACTCTGGTGGTTCTCCATGGGGAAGAGATCAG                         GGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
genomic: CAAATGGTGGGTTAGATGACTCTGGTGGTTCTCCATGGGGAAGAGATCAGgtttgcctca ... ctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
EST: gi|67033989|gb|CO462738.1|CO462738
EST:     CAAATGGTGGGTTAGATGACTCTGGTGGTTCTCCATGGGGAAGAGATCAG                         GGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
genomic: CAAATGGTGGGTTAGATGACTCTGGTGGTTCTCCATGGGGAAGAGATCAGgtttgcctca ... ctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
EST: gi|166505071|gb|EG317739.1|EG317739
EST:     TCTGGTGGTTCTCCATGGGGAAGAGATCAG                         GGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACTTAGA
genomic: TCTGGTGGTTCTCCATGGGGAAGAGATCAGgtttgcctca ... ctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTAC--AGA
EST: gi|71329683|gb|DR801566.1|DR801566
EST:     CAAATGGTGGGTTAGATGACTCTGGTGGTTCTCCATGGGGAAGAGATCAG                         GGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
genomic: CAAATGGTGGGTTAGATGACTCTGGTGGTTCTCCATGGGGAAGAGATCAGgtttgcctca ... ctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
EST: gi|13558170|gb|BG549526.1|BG549526
EST:     TGGTTCTCCATGGGGAAGAGATCAG                         GGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
genomic: TGGTTCTCCATGGGGAAGAGATCAGgtttgcctca ... ctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
EST: gi|211228739|gb|FL103757.1|FL103757
EST:     CAAATGGTGGGTTAGATGACTCTGGTGGCTCTCCATGGGGAAGAGATCAG                         GGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
genomic: CAAATGGTGGGTTAGATGACTCTGGTGGTTCTCCATGGGGAAGAGATCAGgtttgcctca ... ctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
EST: gi|13558169|gb|BG549525.1|BG549525
EST:     GTGGTTCTCCATGGGGAAGAGATCAG                         GGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
genomic: GTGGTTCTCCATGGGGAAGAGATCAGgtttgcctca ... ctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
EST: gi|101384111|gb|EB814110.1|EB814110
EST:     CCATGGGGAAGAGATCAG                         GGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG
genomic: CCATGGGGAAGAGATCAGgtttgcctca ... ctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactattaagttgccatctgcaagcactgagctcaaacttggaacctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACGGCACTGGAAGTAGCTCTTTCAGTTATTCGTGCTAATCCTGCAGTTTTGG
                                           acctaat  putative branch site (score: 3)
     ttaagtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgcctcaaaacttctcgtgcaccttcaagaactattaagttgccatctgcaagcactgagctcaaacttggaacctaatggcagGGCCATCTAGTTGATCTCGTTCAGAGGGAAGTAAAAGCGCTTTTACAGACGGCACTGGAAGTAGCTCTTTCAGTTATTCGTGCTAATCCTGCAGTTTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG