Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATGCAGCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttcccatctgtgttactaaagatgctaccttaccatacacatatttattctaattctgtttttgcacccccag

Basic information

species Zea mays
transcript GRMZM2G109039_T04
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109039_T04 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g48964.1 (Oryza sativa), 5'ss of exon 7
AAATGCAGCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttcccatctgtgttactaa-------agatgctaccttaccatacacatatttattctaattctgtttttgcacccccag
        ||||||||||  ||||| ||||| |||||||||||||| || |||||||| || |||||||| ||||| ||||||||||| |||||  | |||||| | ||    | |||||  ||       |||||  |||||     ||    || | |  |||| |||||||   | ||||||
--------CACCTTGATCGAGAAGGAATTAGCTTTTGCTGTCGAACTACATATGATGAAAACGCTATTACTAATGCTGTTGAGATATTCAATACTACCAGgtaattgccttgttctgttataaagttcattagatgtgacctttttgaacttgcatctgtattaatactgtttt---atccccag

upper sequence: GRMZM2G109039_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA04G12500.1 (Glycine max), 5'ss of exon 7
AAATGCAGCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaact--tcccatctgtgttactaaagatgctaccttacc-----atacacatatttattctaattc---tgtttttgcacccccag
        ||||| ||||     ||| |||| ||||||    ||||||||||||||||||||||||| || |||||  ||||||| | | ||    |||||||  |  |      | |  |  |     ||  |  | |       |||     |   | | ||||     ||||||   |     ||
--------CACCTAGATCGACCTGGTGTTAGCTTTTGCACGAGAACAACTTATGATGATAATGCTATCACCAATGCCATTGAGATTTATGATTGTCCTAGgtatatagttttccttctcctggtggttttgtcatttgatttatggatatcggcaccaagtttaatgtgattgttttctgatttttag

upper sequence: GRMZM2G109039_T04 (Zea mays), 5'ss of exon 1
lower sequence: Vv00s0568g00010.t01 (Vitis vinifera), 5'ss of exon 7
AAATGCAGCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttcccatctgtgttactaaagatgctaccttaccatacacatatttattctaatt---ctgtttttgcaccc---ccag
         |  | ||||     ||  || | ||||| | ||||||||||||||| || |||||||| |||||||| || ||||| | | |||   | ||||   ||   |||| |  |  ||  | || ||   ||    | |  ||  ||    |  |    ||   |   |      ||||
--------TATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAGgttgtttattatcttttgttgtagtggtggtaaagtaattcatatctaaatacaggagctgacttgagctaaaattttgtccag

upper sequence: GRMZM2G109039_T04 (Zea mays), 5'ss of exon 1
lower sequence: Vv00s1206g00020.t01 (Vitis vinifera), 5'ss of exon 3
AAATGCAGCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttcccatctgtgttactaaagatgctaccttaccatacacatatttattctaatt---ctgtttttgcaccc---ccag
         |  | ||||     ||  || | ||||| | ||||||||||||||| || |||||||| |||||||| || ||||| | | |||   | ||||   ||   |||| | ||  ||  | || ||   ||    | |  ||  ||    |  |    ||   |   |      ||||
--------TATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAGgttgtttattatctttttttgtagtggtgttaaagtaattcatatctaaatacaggagctgacttgagctaaaattttgtccag

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|211395430|gb|FL283720.1|FL283720
EST:     ATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: ATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
EST: gi|22472113|gb|BU036593.1|BU036593
EST:     TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
EST: gi|21987570|gb|BQ779098.1|BQ779098
EST:     TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA