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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGCGACGGACAGCACCGACATCAACGACTCCAGCATCAACCCGGCCATCAAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtacacgcacacgaggtgttcgacggattgcctagcctgcaatgcgcgcaccttcttgcgctagtgtctctgaccattccaactgaaaagtgttgatcgtgtgattcagttatttttcctcttatctgatgagaaggcggagctaacacattacgtgctgacgcag

Basic information

species Oryza sativa
transcript LOC_Os04g52640.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52640.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G155837_T02 (Zea mays), 5'ss of exon 2
CGGCGACGGACAGCACCGACATC---AACGACTCCAGCATCAACCCGGCCATCAAGTGCGACTGCTCCGACCAGAACAAC---ACAGTGTGCCACATCACCGGGCTgtaagtgtacacgcacacgaggtgttcgacggattgcctagcctgcaatgcgcgcaccttcttgcgctagtgtctctgaccattccaactgaaaagtgttgatcgtgtgattcagttatttttcctcttatctgatgagaaggcggagctaacacattacgtgctgacgcag
      ||||| ||||  |||||   |||||| |||   |||||||||||||||||||||| ||||||| ||||||||||   || || |||||| |||||  ||||||||||       || || || || || | |     | |     | |  ||| | |||   |||   ||     |||     |     ||||      |    |||                                                                 
------CGGACGGCACGAACATCGACAACGACCCCACTTTCAACCCGGCCATCAAGTGCGAGTGCTCCGTCCAGAACAACCGCACCGTCTGCCACGTCACCAAGCTgtaagtgcttctctacgcg-ggcgtgcgtcaggcgctcga-----cgaaacgcccgcctgactgcctgagccctgctg-tgtctgtgcgtgaatgcacgtagctgtg-----------------------------------------------------------------

upper sequence: LOC_Os04g52640.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G126858_T01 (Zea mays), 5'ss of exon 3
CGGCGACGGACAGCACCGACATCAACGACTCCAGCATCAACCCGGCCATCAAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtacacgcacacgaggtgttcgacggattgcctagcctgcaatgcgcgcaccttcttgcgctagtgtctctgaccattccaactga--aaagtgttgatcgtgtgattcagttatttttcctcttatctgatgagaaggcggagctaacacattacgtgctgacgcag
|||| |||||| ||||   |||| ||| |  ||  || ||||||| |||||||||||||||||||||||| ||||||||  | |||||||| |||| |||||||||||   | |   |  |      ||||||   |   |  | | ||||     ||  | | | |  | | |  ||    |||   ||||  ||| |  ||                                                                       
CGGCCACGGACGGCACGTCCATCTACGCCGACAAAATGAACCCGGGCATCAAGTGCGACTGCTCCGACCACAACAACACCATCTGCCACATTACCGAGCTgtaagtgtctgcacg-gcacgtccacggacgga--actgggtattcgatgctttttcccccctcctcctgaggcgttgggtgttcgtgctgagcaaaatcctg-----------------------------------------------------------------------
















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|88410203|gb|CI575801.1|CI575801
EST:     AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCT                         GAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
genomic: AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtac ... gctgacgcagGAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
EST: gi|88360881|gb|CI625187.1|CI625187
EST:     AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCT                         GAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGGGGAA
genomic: AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtac ... gctgacgcagGAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
EST: gi|88347608|gb|CI634293.1|CI634293
EST:     AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCT                         GAAGATATATGANAAGGATGCAAGTGGCCAGATACCAGGAGAGCTGCGGAA
genomic: AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtac ... gctgacgcagGAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
EST: gi|88368820|gb|CI649411.1|CI649411
EST:     AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCT                         GAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
genomic: AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtac ... gctgacgcagGAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
EST: gi|88334354|gb|CI642599.1|CI642599
EST:     AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCT                         GAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
genomic: AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtac ... gctgacgcagGAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
EST: gi|88326454|gb|CI659885.1|CI659885
EST:     AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCT                         GAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
genomic: AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtac ... gctgacgcagGAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
EST: gi|88380887|gb|CI634912.1|CI634912
EST:     AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCT                         GAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
genomic: AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtac ... gctgacgcagGAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
EST: gi|88389754|gb|CI626523.1|CI626523
EST:     AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCT                         GAAGATATATGAAAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
genomic: AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtac ... gctgacgcagGAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA
EST: gi|88396823|gb|CI577972.1|CI577972
EST:     AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCT                         GAAGATATATGACAAGGATGCAACTGGCCAGATAC-AGGAGAGCTGCGGAA
genomic: AAGTGCGACTGCTCCGACCAGAACAACACAGTGTGCCACATCACCGGGCTgtaagtgtac ... gctgacgcagGAAGATATATGACAAGGATGCAACTGGCCAGATACCAGGAGAGCTGCGGAA