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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtccagttctgttttattttttttgggaactctatcacatagcactatatcagcaatagactatacattattgttttatgaagggctatgatctttgtgatgaatcaactttgtttccacttctctagGGATTTGAGGCTGCTCTTGCAGCTGGTGCAAAAGAAGTTGCAGTCTTCGCATCTGCCTCTGAATCCTTTTCTAAGTCAAACCTTAATTGTACCATCAAGG

Basic information

species Oryza sativa
transcript LOC_Os11g04210.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g04210.1 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtccagttctgttttattttttttgggaactctatcacatagcactatatc-agcaatagactatacattattgttttatgaagggctatgatctttgtgatgaatcaacttt--gtttccacttctc-tagGGATTTGAGGCTGCTCTTGCAGCTGGTGCAAAAGAAGTTGCAGTCTTCGCATCTGCCTCTGAATCCTTTTCTAAGTCAAACCTTAATTGTACCATCAAGG
                                               | | | || || || ||   | | |  ||   || |  |||   |    ||| | || |||   || ||    | || ||| ||  ||||||||||| || ||| ||||||||||||| || ||||||||  |||| || || || ||||| |||||||| ||||||||| | |||||||  ||  | |
----------------------------------------gtgagtaattgtttccagaaaaaggggaaaaaccatgagttca--aagcaattctgtctgtatg-tgagggaatttctcatatcaactacttgtagGGATTTGAAGCAGCTATTGCAGCTGGTGCTAAGGAAGTTGCCATCTTTGCTTCAGCTTCTGAGTCCTTTTCAAAGTCAAACATCAATTGTAGTATTGAAG
















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|157651680|gb|EX451314.1|EX451314
EST:     TTAGGCATGTGCCAGATGTGCGGTTTCCTGTGTTAACTCCTAACCTCAGA                         GGATTTGAGGCTGCTCTTGCAGCTGGTGCAAAAGAAGTTGCAGTCTTCGCA
genomic: TTAGGCATGTGCCAGATGTGCGGTTTCCTGTGTTAACTCCTAACCTCAGAgtatgtccag ... acttctctagGGATTTGAGGCTGCTCTTGCAGCTGGTGCAAAAGAAGTTGCAGTCTTCGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttatgaagggctatgatctttgtgatgaatcaactttgtttccacttctctagGGATTTGAGGCTGCTCTTGCAGCTGGTGCAAAAGAAGTTGCAGTCTTCGCATCTGCCTCTGAATCCTTTTCTAAGTCAAACCTTAATTGTACCATCAAGG
                                   ctttgtttccacttct  CT-rich tract
                                    tttgttt  TA-rich tract