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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGAGGGCATGCTCGCTGGCGAGATGAAGCACGGGCCGCTGGCCCTCGTGGACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataaagaagcatgggcccagctttggttaccctttttggtagcaggaaaccaacctcttttcaaaacctcttgcag

Basic information

species Zea mays
transcript GRMZM2G005849_T01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G005849_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os12g03720.1 (Oryza sativa), 5'ss of exon 9
GCGAGGGCATGCTCGCTGGCGAGATGAAGCACGGGCCGCTGGCCCTCGTGGACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaa---tgataaagaagcatgggcccagctttggttaccctttttggtagcaggaaaccaacctcttttcaaaacctcttgcag
|||| |||||||| ||||| || |||||||| || || || || || ||||| || ||||| || ||||| |||||||| || || || |||||||||||||||      |  | |  |    |  ||  ||   || |  ||  |  |   ||||   |  |      ||   |||||||||||
GCGAAGGCATGCTTGCTGGTGAAATGAAGCATGGACCACTTGCACTAGTGGATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctttggacagactgcagagcacgttcattttcttttcatttttcaaggagttcctctaaacatcttcacctcttgcag

upper sequence: GRMZM2G005849_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os11g03900.1 (Oryza sativa), 5'ss of exon 9
GCGAGGGCATGCTCGCTGGCGAGATGAAGCACGGGCCGCTGGCCCTCGTGGACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaa---tgataaagaagcatgggcccagctttggttaccctttttggtagcaggaaaccaacctcttttcaaaacctcttgcag
|||| |||||||| ||||| || |||||||| || || || || || ||||| || ||||| || ||||| |||||||| || || || |||||||||||||||      |  | |  |    |  ||  ||   || |  ||  |  |   ||||   |  |      ||   |||||||||||
GCGAAGGCATGCTTGCTGGTGAAATGAAGCATGGACCACTTGCACTAGTGGATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctttggacagactacagagcacgttcattttcttttcatttttcaaggagttcctctaaacatcttcacctcttgcag

upper sequence: GRMZM2G005849_T01 (Zea mays), 5'ss of exon 9
lower sequence: EDP02705 (Chlamydomonas reinhardtii), 5'ss of exon 16
---------------GCGAGGGCATGCTCGCTGGCGAGATGAAGCACGGGCCGCTGGCCCTCGTGGACGAGAACCTCCCCATCATTGTCATTGCGACCCG-CGACGCGT-GCTTCAGgtaatgataaagaagcatgggcccagcttt----ggttaccctttttggtagcaggaaaccaacctcttttcaaaacctcttgcag
               |||||||||| || || ||||||||||||||||| |||||||| || |||||| |  || | |||||| | ||||| || || ||  || |||  |   |||  |  |   | || ||  |||  |          ||  | |    |  |  | ||    | |     |  |||  |  ||  ||| 
TGGCCATCATCCACAGCGAGGGCATCCTGGCGGGCGAGATGAAGCACGGCCCGCTGGCGCTGGTGGACAAACACATGCCCATCGTCGTCATCGCCACGCGgtgaggcggagagccagaaagaggggaggatgcgggggggcgatgacaggcggcgagcaggctccgcgggagtttgctatataatgatcagga--tcaggca-

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|211507116|gb|FK960930.1|FK960930
EST:     GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
genomic: GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
EST: gi|7216484|gb|AW562606.1|AW562606
EST:     GACGAGAACCTCCCCATCATTGTCATTGCGACTCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAGCAGCTCCTCTCGCGTAGGGGGCGCCTGAT
genomic: GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
EST: gi|89248870|gb|DY620656.1|DY620656
EST:     GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
genomic: GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
EST: gi|211507111|gb|FK960925.1|FK960925
EST:     GACGAGAACCTCCCCATCATTGTCATTGCGACTCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAGCAGCTCCTCTCGCGTAGGGGGCG
genomic: GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCG
EST: gi|148955139|gb|EC900656.2|EC900656
EST:     GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
genomic: GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
EST: gi|71771453|gb|DR969390.1|DR969390
EST:     GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
genomic: GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
EST: gi|149005283|gb|EE039832.2|EE039832
EST:     GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
genomic: GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
EST: gi|47962136|gb|CN844845.1|CN844845
EST:     GACGAGAACCTCCCCATCATTGTCATTGCGACTCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAGCAGCTCCTCTC
genomic: GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTC
EST: gi|211029256|gb|FL478423.1|FL478423
EST:     GACGAGAACCTCCCCATCATTGTCATTGCGACTCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAGCAGCTCCTCTCGCGTAGGGGGCGCCTGAT
genomic: GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
EST: gi|149014771|gb|EE044463.2|EE044463
EST:     GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
genomic: GACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
EST: gi|111197488|gb|EE295623.1|EE295623
EST:     CCGAGAACCTCCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAG                         CAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT
genomic: ACGAGAACCT-CCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaatgataa ... cctcttgcagCAAGCAGCAGTCGGTGATCCAACAGCTCCTCTCGCGCAGGGGGCGCCTGAT