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

gttggtaaatctttacacttacatacaattagtttttttttttgtagaaacaatctttgatctttatttttactgcagACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTTCACCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCA

Basic information

species Zea mays
transcript GRMZM2G550865_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G550865_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g14980.1 (Oryza sativa), 3'ss of exon 21
gttggtaaatctttacacttacatacaattagtttttttttttgtagaaac-aatctttgatctttatttttactgcagACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTTCACCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCA
    || | | |  |   |||  | | |||  || | | || ||||||||   | |||| ||| | ||  | ||||||||| |||||||| ||||||||| | |||||||| ||||| |||||||| || || || |||||||||||||| || |||||||||||||||||||||||||
----gttagt-tacaagtttattt-ctattgtttgtctcttatgtagaaattgaactttaatcat-atggtgactgcagACGATGACAACTTTTATGCCTCCGCCGCCGGCGGCAACGTTTCTTGCTTTCCATCCTCAAGATAACAACATTATAGCAATTGGAATGGATGACTCAACCA

upper sequence: GRMZM2G550865_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S316_34V6.1 (Physcomitrella patens), 3'ss of exon 20
----------gttggtaaatctttacacttacatacaattagtttttt-----tttttgtagaaacaatctttgatctttatttt-------tactgcagACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTTCACCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCA
           |||       |||  | |   | | ||||| | |  |     |  ||| | |    |  | |||   ||   ||       |  | |||   ||||| ||||| |||||  |||| || ||||| ||||||||||| || || |||||||| |||||||| ||||| || |||||||| || ||||| |
tattaaaaaaattgaagccattttttattattaaaaaattactctgctggtgatgcttgaacatggcagttctgacagttgccttcggattgtgattcagGTCATGACGACATTCATGCCGCCACCTCCAGCAGCTACTTTTCTTGCGTTCCATCCCCAAGACAACAACATCATTGCCATAGGAATGGAGGATTCAACAA

upper sequence: GRMZM2G550865_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S99_260V6.1 (Physcomitrella patens), 3'ss of exon 20
----------------------------------------------------gttggtaaatctttacacttacatacaattagtttttttt--tttgtagaaacaatctttgatctttatttttactgcagACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTTCACCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCA
                                                    | ||  ||   |||    ||   ||   ||     || |   ||| ||     |  ||||  |    ||||| ||| |||   ||||| ||||| |||||  |||| || ||||| ||||||||||||||||| || ||||| ||||| || ||||| || |||||||| || || || |
gtaaagtccgcgaatcatgaggagtctattttattctttgttctaataatatggtgagaagcgttttgtttttggtaattttgacagttgtcaatttttattctgacgcttttcttcggattttgact-cagGTCATGACGACATTCATGCCACCACCTCCAGCAGCTACTTTTCTTGCATTTCATCCACAAGACAACAATATCATTGCTATCGGAATGGAAGATTCGACAA

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|74236788|gb|DT644702.1|DT644702
EST:     TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTTAACATGATGACTTTCAAG                         ACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTTAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|18963627|gb|BM660541.1|BM660541
EST:     TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         C
genomic: TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTTAACATGATGACTTTCAAGgttggtaaat ... tttactgcag-
EST: gi|18963627|gb|BM660541.1|BM660541
EST:     TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         C
genomic: TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTTAACATGATGACTTTCAAGgttggtaaat ... tttactgcag-
EST: gi|19058178|gb|BM736845.1|BM736845
EST:     TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTTAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|87152018|gb|DY396807.1|DY396807
EST:     TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTTAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|32858467|gb|CD998148.1|CD998148
EST:     TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCCGCTTCTGGAGGAAAAATCTCTCTGTTTAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacaattagtttttttttttgtagaaacaatctttgatctttatttttactgcagACAATGACAACATTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTTCACCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCA
                               ctttgat  putative branch site (score: 5)
                                     tctttatttttact  CT-rich tract
     ttagtttttttttttg  TA-rich tract