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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagtctgttgattgtgctttaacctacagttgcaaaagaagttcagattatgtcttttcctgttcaatatatgattccctgtttttctttttttgtttctcagGAAATATCACTATTGAGCCGCCTACAGCATCCAAATATCGTACAATACTATGGATCAGAAACG

Basic information

species Oryza sativa
transcript LOC_Os04g47240.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g47240.3 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G175504_T01 (Zea mays), 3'ss of exon 3
gtatagtctgttgattgtgctttaacctacagttgcaaaagaagttcagattatgtcttttcctgttcaatatatgattccctgttttt-ctttttttgtttctcagGAAATATCACTATTGAGCCGCCTACAGCATCCAAATATCGTACAATACTATGGATCAGAAACG
||||  | | |    |||| | |   | ||      |||   |||| | |   ||| |||   ||||   ||  | ||    | | ||| |  |||  ||||  |||||||||||||| ||||| ||| |||  ||||||||||| |||||||||||||||||||||| |
gtatgttatttcagatgtgttgtgcaccacctgcaaaaatttagtttataagctgtgtttat-tgttt--tacgttatcttttatctttgccctttccgtttaacagGAAATATCACTCTTGAGTCGCTTACGACATCCAAATATTGTACAATACTATGGATCAGAAATG
















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|58611652|gb|CK039364.1|CK039364
EST:     GTGCAAAGCAGTTGGGGCAG                         GAAATATCACTATTGAGCCGCCTACAGCATCCAAATATCGTACAATACTAT
genomic: GTGCAAAGCAGTTGGGGCAGgtatagtctg ... tgtttctcagGAAATATCACTATTGAGCCGCCTACAGCATCCAAATATCGTACAATACTAT
EST: gi|4715352|gb|AU056469.1|AU056469
EST:     TATTCTTGGATGATCCTAAATCAAAGGAAAGTGCAAAGCAGTTNGGGCAG                         GAAATATCACTATTGAGCCGCCTACAGCATCCAAATATCGNACAATACTAT
genomic: TATTCTTGGATGATCCTAAATCAAAGGAAAGTGCAAAGCAGTTGGGGCAGgtatagtctg ... tgtttctcagGAAATATCACTATTGAGCCGCCTACAGCATCCAAATATCGTACAATACTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtcttttcctgttcaatatatgattccctgtttttctttttttgtttctcagGAAATATCACTATTGAGCCGCCTACAGCATCCAAATATCGTACAATACTATGGATCAGAAACG
                       tgattccctgtttttc  CT-rich tract
                                 tttttctttttttgtt  TA-rich tract