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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTACGCTTGATGCAGCAAGACGTGCCTCAGCCTTTGTTCGGGGTGACAATGTTGTTCACAAGTTATTCACAGAACTCGCCTACCGCTACAAgtaacttttagcccgctatgagttggtttcacttttgattttgatttttgttctggctagcatgtctaaaggaacttggctgtcaagatttaccttatgcatgtccattatgtttcctttgtttgtag

Basic information

species Oryza sativa
transcript LOC_Os05g38580.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g38580.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G112865_T03 (Zea mays), 5'ss of exon 3
GGTACGCTTGATGCAGCAAGACGTGCCTCAGCCTTTGTTCGGGGTGACAATGTTGTTCACAAGTTATTCACAGAACTCGCCTACCGCTACAAgtaacttttagcccgctatgagttggtttcacttttgattttg-atttttgttctggctagcatgtctaaaggaacttggctgtcaagatttaccttatgcatgtccattatgtttcctttgtttgtag
||||| |   ||||||||||||||||  | |||||||||||||||||  |||| ||||| ||| |||| || || || ||||  ||||||| ||||  | |      |    |  ||| ||||||     |  || || |   |||  |||   || ||  ||     |||| ||| | |  ||  | | |  |||||    ||                 
GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTATTTACTGAGCTGGCCTTTCGCTACAGgtaa--tctgttttacctacacatggattcactcagtgtactgtatctgcattcgcgct---atttcagaa-----ttgg-tgtgatg--ttgtcattttgatgtctgaaata----------------
















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|27547785|gb|CA766051.2|CA766051
EST:     GGTGACAATGTTGTTCACAAGTTATTCACAGAGCTCGCCTACCGCTACAA                         AGATCGAGCTGGTGGATATACAAGACTACTGCGGACTAGGATACGGGTTGG
genomic: GGTGACAATGTTGTTCACAAGTTATTCACAGAACTCGCCTACCGCTACAAgtaactttta ... ttgtttgtagAGATCGAGCTGGTGGATATACAAGACTACTGCGGACTAGGATACGGGTTGG
EST: gi|86531078|gb|CI171284.1|CI171284
EST:     GGTGACAATGTTGTTCACAAGTTATTCACAGAACTCGCCTACCGCTACAA                         AGATCGAGCTGGTGGATATACAAGACTACTGCGGACTAGGATACGGGTTGG
genomic: GGTGACAATGTTGTTCACAAGTTATTCACAGAACTCGCCTACCGCTACAAgtaactttta ... ttgtttgtagAGATCGAGCTGGTGGATATACAAGACTACTGCGGACTAGGATACGGGTTGG