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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtaaagtcgttttcctgttgtcttcaaattgtgggtgaactcttcatcgtgtatctgcaaggatgcatctaaaatagctcaatacccatttgttatctacagATGTTTAGATCCATCAGACATACAAAGGACTTCGATGTCTCTCTCAACTATGACAAAGCTTATGAACTGCCTCCAGGCATTCCATCACACAAGTTTGCAG

Basic information

species Zea mays
transcript GRMZM2G020040_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G020040_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g48110.1 (Oryza sativa), 3'ss of exon 4
gttagtaaagtcgttttcctgttgtcttcaaattgtgggtgaactcttcatcgtgtatctgcaaggatgcatctaaaatagctcaatacccatttgttatctacagATGTTTAGATCCATCAGACATACAAAGGACTTCGATGTCTCTCTCAACTATGACAAAGCTTATGAACTGCCTCCAGGCATTCCATCACACAAGTTTGCAG
|||| ||| |    |||| ||||  |||   ||| |  |  ||      |  || | | |  ||  ||      ||  |||||    |    |||||| |||||||||||| || ||||| |||||||| || ||||||||||| ||| ||| |||||| ||||||| |||||||||||||||  || |||||||||| ||||  |
gtta-taatgcacctttcttgtttccttttgattatatgcaaaaaaaaaa--gttttttttaaaaaat------aatctagcttgcaattgttttgttgtctacagATGTTCAGGTCCATTAGACATACTAAAGACTTCGATGTTTCTATCAGCTATGAAAAAGCTTCTGAACTGCCTCCAGGTGTTACATCACACAAATTTGTGG
















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|8551700|gb|BE128856.1|BE128856
EST:     AAAGCATTGATCAAATTTTGGTTCCAAGAATGAAGAAAATGCCAATAAAG                         ATGTTTAGATCCATCAGACATACAAAGGACTTCGATGTCTCTCTCAACTAT
genomic: AAAGTATTGACCAAATTTTGGTTCCAAGAATGAAGAAAATGCCAATAAAGgttagtaaag ... ttatctacagATGTTTAGATCCATCAGACATACAAAGGACTTCGATGTCTCTCTCAACTAT
EST: gi|78179804|gb|DV550177.1|DV550177
EST:     AAAGCATTGATCAAATTTTGGTTCCAAGAATGAAGAAAATGCCAATAAAG                         ATGTTTAGATCCATCAGACATACAAAGGACTTCGATGTCTCTCTCAACTAT
genomic: AAAGTATTGACCAAATTTTGGTTCCAAGAATGAAGAAAATGCCAATAAAGgttagtaaag ... ttatctacagATGTTTAGATCCATCAGACATACAAAGGACTTCGATGTCTCTCTCAACTAT
EST: gi|12047102|gb|BF729241.1|BF729241
EST:     AAAGCATTGATCAAATTTTGGTTCCAAGAATGAAGAAAATGCCAATAAAG                         ATGTTTAGATCCATCAGACATACAAAGGACTTCGATGTCTCTCTCAACTAT
genomic: AAAGTATTGACCAAATTTTGGTTCCAAGAATGAAGAAAATGCCAATAAAGgttagtaaag ... ttatctacagATGTTTAGATCCATCAGACATACAAAGGACTTCGATGTCTCTCTCAACTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtgtatctgcaaggatgcatctaaaatagctcaatacccatttgttatctacagATGTTTAGATCCATCAGACATACAAAGGACTTCGATGTCTCTCTCAACTATGACAAAGCTTATGAACTGCCTCCAGGCATTCCATCACACAAGTTTGCAG
                   atctaaa  putative branch site (score: 3)
                   atctaaaata  TA-rich tract