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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATAATATCTCCTTCACAGACAGTTGAAAAGGCAGTTCAATGGGCTTTAAAGGGTTCCAGTCCTGATATTGTATTGCACATGCGCATGATGACAAACAGgtatgaagcactatctgtggcataaaggaaggaaatagatgtaaatttccacattcatttgaaaacataataggatattgtcaaatttgacgttgtaaac...

Basic information

species Oryza sativa
transcript LOC_Os11g31110.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g31110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G015854_T02 (Zea mays), 5'ss of exon 3
TTATAATATCTCCTTCACAGACAGTTGAAAAGGCAGTTCAATGGGCTTTAAAGGGTTCCAGTCCTGATATTGTATTGCACATGCGCATGATGACAAACAGgtatgaagcactatctgtgg-------cataaaggaaggaaatagatgtaaatttccacattcatttgaaaacataa--taggatattgtcaaat-ttgacgttgtaaac
 ||| |||||||| ||    | |||  || | |||||| | |||||||| ||||||   | ||| |||||||| |||||||||||||||||| | || |||||||  ||||||| |||||         ||||   | | |||  || || |||  | |||   ||  ||||   ||  |    | | ||  ||| |||||         
CTATTATATCTCCATCCAGCAAAGTCCAAGAAGCAGTTGACTGGGCTTTGAAGGGTGTGAATCCAGATATTGTTTTGCACATGCGCATGATGGCGAATAGgtatggcgcactatttgtggatgcttgtgtaaattgaagtaatt-atatagattgtcccatcagttcaaaaaggaaaactgcagtgtagtagaatattgac---------
















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|58681654|gb|CK070341.1|CK070341
EST:     AAGGGTTCCAGTCCTGATATTGTATTGCACATGCGCATGATGACAAACAG                         GCCAGTTCGAGCAAGAAAAGCTGCAGTTAATTGTATTAAGAGAGCTATAGA
genomic: AAGGGTTCCAGTCCTGATATTGTATTGCACATGCGCATGATGACAAACAGgtatgaagca ... ttttgactagGCCAGTTCGAGCAAGAAAAGCTGCAGTTAATTGTATTAAGAGAGCTATAGA
EST: gi|58691702|gb|CK080389.1|CK080389
EST:     AAGGGTTCCAGTCCTGATATTGTATTGCACATGCGCATGATGACAAACAG                         -----TTCGAGCAAGAAAAGCTGCAGTTAATTGTATTAAGAGAGCTATAGA
genomic: AAGGGTTCCAGTCCTGATATTGTATTGCACATGCGCATGATGACAAACAGgtatgaagca ... ttttgactagGCCAGTTCGAGCAAGAAAAGCTGCAGTTAATTGTATTAAGAGAGCTATAGA