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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGAAGTTATTGATCACTCTCTCGAGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaagaaaatgaaaagagaagatttttatgtatcttaatcgtattccttgtgcttgatgtagcccccttttgcatttgctcttatgcag

Basic information

species Oryza sativa
transcript LOC_Os04g56450.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g56450.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G056572_T02 (Zea mays), 5'ss of exon 7
GAGGAAGTTATTGATCACTCTCTCGAGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaagaaaatgaaa----ag----agaagatttttatgtatcttaatcgtattccttgtgcttgatg---tag--cccccttttgcatttgctcttatgcag--------------
||||||||| ||||| || | |||||||| || || |||||||||||||||||||||||||| ||  | || ||||||| ||    ||   | |     ||    |||| |||||   |     |    | | || ||||||||  ||   |||  || ||| |||    || |||| | ||               
GAGGAAGTTGTTGATGACACACTCGAGTTTCTTATCCTTGCAAGTGATGGGCTGTGGGATGTGGTCTCTAACGAGgtaatttaggaaatgcggagccggagctccagaatattttgccggtcgcttgctgcactcattgtgcttagtgccttagtaccacctgttggcaatgttctt-tacaatgtttgccatgcag

upper sequence: LOC_Os04g56450.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G056572_T03 (Zea mays), 5'ss of exon 7
GAGGAAGTTATTGATCACTCTCTCGAGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaagaaaatgaaa----ag----agaagatttttatgtatcttaatcgtattccttgtgcttgatg---tag--cccccttttgcatttgctcttatgcag--------------
   |||||| ||||| || | |||||||| || || |||||||||||||||||||||||||| ||  | || ||||||| ||    ||   | |     ||    |||| |||||   |     |    | | || ||||||||  ||   |||  || ||| |||    || |||| | ||               
---GAAGTTGTTGATGACACACTCGAGTTTCTTATCCTTGCAAGTGATGGGCTGTGGGATGTGGTCTCTAACGAGgtaatttaggaaatgcggagccggagctccagaatattttgccggtcgcttgctgcactcattgtgcttagtgccttagtaccacctgttggcaatgttctt-tacaatgtttgccatgcag

upper sequence: LOC_Os04g56450.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT4G31750.1 (Arabidopsis thaliana), 5'ss of exon 8
GAGGAAGTTATTGATCACTCTCTCGAGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaa--------attcaag----aaaatgaaaagagaagatttttatgtatcttaatcgtattccttgtgcttgatg--tagcccccttttgcatttgctcttatgcag
||||||    |||||  |||||||||||| |||||||||||||||||||| || ||||| || ||| | || ||||||         |||  |     ||| |     |  ||  ||  | | | |   | ||  | |||| |  ||  |    |   | |  ||   || |    ||  |   
GAGGAAAAAGTTGATAGCTCTCTCGAGTTTCTCATTCTTGCAAGTGATGGTCTCTGGGACGTTGTATCTAACGAGgtaggaagtgtcatttgatttctaaacttccctgttaaacttcctctttttaacattcccaatcctcggactcaaaaactgatctctgttcaaatctttatttcag---

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|86423847|gb|CI062608.1|CI062608
EST:     GTTCCTCATTTCTTGCAAGTGATGGCCTGTGGGATGTAGTAACCAATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: GTTCCTCA-TTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
EST: gi|8858859|gb|AU096177.1|AU096177
EST:     AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
EST: gi|27547322|gb|CA765327.2|CA765327
EST:     AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
EST: gi|66920381|gb|CX107229.1|CX107229
EST:     AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
EST: gi|88844668|gb|CI021243.1|CI021243
EST:     AGTTCCTCATTCTTGCAAGTGATGGGCTTTGGGATGTAGTAACCCATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
EST: gi|38476736|gb|CF960869.1|CF960869
EST:     TCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: TCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
EST: gi|24208771|gb|AU225798.1|AU225798
EST:     AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
EST: gi|86536657|gb|CI176863.1|CI176863
EST:     AGTTCCTCATTCTGGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
EST: gi|14981649|gb|BI306327.1|BI306327
EST:     AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
EST: gi|86423540|gb|CI062301.1|CI062301
EST:     AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCCATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
EST: gi|5003298|gb|AU068447.1|AU068447
EST:     AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAG                         GAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG
genomic: AGTTCCTCATTCTTGCAAGTGATGGGCTGTGGGATGTAGTAACCAATGAGgtaaattcaa ... tcttatgcagGAGGCTGTCGACATGACCAGATCGATTCATGACCCAGAAGAAGCTGCAAAG