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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatatttttgcctcattgctttgatacatactctctgcagaacttgttccggttagatagctttgtagacctgatctcatgcatgtgctccgtagtcctagcatggcaggctggccttttgatgttgttggtcatatttatgtagttatgataaaatatgttgatttacagCTATTGGCCTACATATCCACCAATGGACGTGAAACTCCCACACGAACTGAATGTGTATCAG

Basic information

species Zea mays
transcript GRMZM2G704093_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G704093_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 10
gtaaatatttttgcctcattgctttgatacatactctctgcagaacttgttccggttagatagctttgtagacctgatctcatgcatgtgctccgtagtcctagcatggcaggctggccttttgatgttgttggtcatatttatgtagttatgataaaatatgttgatttacagCTATTGGCCTACATATCCACCAATGGACGTGAAACTCCCACACGAACTGAATGTGTATCAG
                                                       ||| ||| |||| ||           | || | ||||  | | |  || ||||  |          ||||| || |   |||||  | || | || |||| ||||||||||  || |||||||||||| ||||||||||||||||| ||||||||||| || ||||| ||||| ||||||
-------------------------------------------------------ttatataactttataa---------taggcgtttgctgagca-tgttaacatgcaa---------cttgatattttctatcataaatgtgcatttctgattaaatatgttgcattgcagCTATTGGCCAACATATCCACCAATGGATGTGAAACTCCCCCATGAACTTAATGTCTATCAG

upper sequence: GRMZM2G704093_T01 (Zea mays), 3'ss of exon 9
lower sequence: PP1S70_181V6.1 (Physcomitrella patens), 3'ss of exon 10
---gtaaatatttttgc---ctcattgctttgatacatactctctgcagaacttgttccggttagatagctttgtagacctgatctcatgcatgtgctccgtagtcctagcatggcaggctggccttttgatgttgttggtcatatttatgtagttatgataaaatatgttgatttacagCTATTGGCCTACATATCCACCAATGGACGTGAAACTCCCACACGAACTGAATGTGTATCAG---------------------------------------
    ||||  |||||     |||   ||| |  |    | ||| |  |    |||| ||      |||  | || |  |||  |||  |      |||   ||     || || |     ||         |     | |  || |  ||    |  |  ||   | || ||  ||  ||||||||||||||||||||||| ||||| || |  || |||| ||| || ||||||||||||                                       
gtaataaacctttttagtcactcgaagctctcttgttgattcttttaatggtttgtgcc------atacttctggatgcct--tcttgt---caagctttatatgtgaagtattgtgtagtgat-------taacacttgcaatctgcattctatcttattattttttggtg--ttgtagCTATTGGCCTACATATCCACCCATGGAGGTTAGGCTTCCACGCGAGCTCAATGTGTATCAGGACATATTCAAGGAGTTTTATCTAAGTAAGCACAGTGGG
















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|32809761|gb|CD961995.1|CD961995
EST:     ACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTACAACAGG                         CTATTGGCCTACATATCCACCAATGGACGTGAAACTCCCACACGAACTGAA
genomic: ACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTACAACAGGgtaaatattt ... tgatttacagCTATTGGCCTACATATCCACCAATGGACGTGAAACTCCCACACGAACTGAA
EST: gi|31357483|gb|CD441840.1|CD441840
EST:     ACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTACAACAGG                         CTATTGGCCTACATATCCACCAATGGACGTGAAACTCCCACACGAACTGAA
genomic: ACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTACAACAGGgtaaatattt ... tgatttacagCTATTGGCCTACATATCCACCAATGGACGTGAAACTCCCACACGAACTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgatgttgttggtcatatttatgtagttatgataaaatatgttgatttacagCTATTGGCCTACATATCCACCAATGGACGTGAAACTCCCACACGAACTGAATGTGTATCAG
                                          tgttgat  putative branch site (score: 4)
                 atatttatgtagttat  TA-rich tract