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

...tgattctgcatatcaattattagctaatttggtagctgcagcttcactattattgctccaaaaggccagtgttgaccatcttcctttctttttgtaacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTGTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG

Basic information

species Zea mays
transcript GRMZM2G366935_T08
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G366935_T09 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g40840.2 (Oryza sativa), 3'ss of exon 5
-------------tgattctgcatatcaattattagctaatttggtagctgcagcttca--ctattattgctccaaaaggccagtgttgaccatctt--cctttctttttgt---aacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTGTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
             |||||||||||||||||| ||| | |||| ||||||||| | ||||  ||  | |||||  ||| |  ||   |||||||||||  ||||||||| |     || |||||||||||| ||  | ||||| ||||||||||||||||||||||||||||| ||||||||||| ||||||||||  |||||| || | |||
gtgtgtgattgtttgattctgcatatcaattcttaacaaattcggtagctgctgattcattcttctgttgctgaaaaggagcatgcttgaccatcttttcctttctttcttctaaaatagATATGCATGAATTACGCCTTATTCACACTGATCTGAAGCCAGAAAACATACTCCTTGTGTCTTCGGAGTATATAAGGGTTCCAGGTTCCAAG

upper sequence: GRMZM2G366935_T09 (Zea mays), 3'ss of exon 5
lower sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------------------------------------------tgattctgcatatcaattatt--agctaatttggtagctgcag-------cttcactattattgctccaaaaggccagtgttgacc--atcttcctttctttttg-----taacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTGTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
                                                                 |||   || |||  || ||   ||   ||| ||   | |||       | ||  ||||||   |           || || ||   || |||||| ||||         ||||||| ||||||| ||  |  | ||||| ||||| |||||||||||||| ||||| ||||| || ||||||| ||||||  |||| ||  | |||
gtgtgtgcattgtccttggcccttgctttatctctcattctgtattttattttctaacctaaccaattacccagatctgttttttgggcctgttttgtttgtccaggactgtacctctgtattatgtttgtgtcctttttgttttaacatgattttccttgctttacaatatccaacagATGTGCATGATTTATGCTTAATCCATACTGACCTGAAGCCAGAAAATATACTTCTTGTATCATCTGAGTGTATAAAGCTTCCTAGCTCCAAG
















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|76915209|gb|DV165882.1|DV165882
EST:     CTGTGTTCAAATACAGAGATGGTTTGACTATCGTAATCATATATGCATT                         ATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATAC
genomic: CTGTGTTCAAATACAGAGATGGTTTGACTATCGTAATCATATATGCATTgtaagtacta ... tttgtaacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATAC
EST: gi|211511149|gb|FL155932.1|FL155932
EST:     CTGTGTTCAAATACAGAGATGGTTTGACTATCGTAATCATATATGCATT                         ATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATAC
genomic: CTGTGTTCAAATACAGAGATGGTTTGACTATCGTAATCATATATGCATTgtaagtacta ... tttgtaacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actattattgctccaaaaggccagtgttgaccatcttcctttctttttgtaacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTGTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
                        tgttgac  putative branch site (score: 3)
                          ttgaccatcttccttt  CT-rich tract
                                       tttcttttt  TA-rich tract