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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattatacatttttgttttttccacaccagactgaagattcttttagtagcctgctggaggaaggttttctaatgttctgtatatttaatacatttccttattaattttggattgtcaacagCCCGTATTACAACATTGAGTTAAAGGAAATACATGTTGCCGGAAAGGCATTGCGGTTAGACCCAAAGATATTCAACAGCAAACATGGCACTGTCTTAGAT

Basic information

species Oryza sativa
transcript LOC_Os07g40260.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g40260.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G090715_T01 (Zea mays), 3'ss of exon 3
gtattatacatttttgttttttccacaccagactgaagattcttttagtagcctgctggaggaaggttttctaatgttctgtatatttaatacatttccttattaattttggattgtcaacagCCCGTATTACAACATTGAGTTAAAGGAAATACATGTTGCCGGAAAGGCATTGCGGTTAGACCCAAAGATATTCAACAGCAAACATGGCACTGTCTTAGAT
                                     |  |  | || |  |||    ||  |  | |   || | || | | |  |  |||  |||  |   ||| |||  | || |||||| || ||||||||||||||||||||||||||||||||||| ||||||||| ||||| ||||  ||| ||| ||  ||||||| ||||| ||||| || |||
-------------------------------------gtattgtataatttcctatatgataatcgatccttattatttt-tgtggtacatatttttattagctaactttaaactggcaacagTCCATATTACAACATTGAGTTAAAGGAAATACATGTTGCTGGAAAGGCACTGCGGGTAGATTCAAGGATCTTTGACAGCAAGCATGGGACTGTTTTGGAT

upper sequence: LOC_Os07g40260.2 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv18s0001g09470.t01 (Vitis vinifera), 3'ss of exon 3
gtattatacatttttgttttttccacaccagactgaagattcttttagtagcctgctggaggaaggttttctaatgttctgtatatttaatacatttccttattaattttggattgtcaacagCCCGTATTACAACATTGAGTTAAAGGAAATACATGTTGCCGGAAAGGCATTGCGGTTAGACCCAAAGATATTCAACAGCAAACATGGCACTGTCTTAGAT
|||  |||| ||| |     |    ||   |||     | | || |       || |  |  |   |||| |         || || | | |||| | ||  ||| ||||||  ||  ||||| || |||||||| |||||| | ||||||||||||||||| || ||| |||||   |||  |||||  |  ||  | || || ||||| || ||| | |||
gtaggatacttttgtaaacctgttgcagttgac-----acttttct------ttgtttaacaacacttttgt---------tacatcttacacatctact--ttagttttgggatggtaacagTCCATATTACAATATTGAGCTCAAGGAAATACATGTTGCTGGGAAGCCATTGAAATTAAGCCCAAGTACCTTTGATAGAAAGCATGGAACAGTCCTGGAT
















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|33801360|gb|CF326551.1|CF326551
EST:     GGTTTTCTCTCATTCAAACCCTGTCCGCAG                         CCCGTATTACAACATTGAGTTAAAGGAAATACATGTTGCCGGAAAGGCATT
genomic: GGTTTTCTCTCATTCAAACCCTGTCCGCAGgtattataca ... ttgtcaacagCCCGTATTACAACATTGAGTTAAAGGAAATACATGTTGCCGGAAAGGCATT
EST: gi|58611100|gb|CK038812.1|CK038812
EST:     ATGCCTGCTCCTCCTGACATGGTTTTCTCTCATTCAAAGCCTGTCCGCAG                         CCCGTATTACAACATTGAGTTAAAGGAAATACATGTTGCCGGAAAGGCATT
genomic: ATGCCTGCTCCTCCTGACATGGTTTTCTCTCATTCAAACCCTGTCCGCAGgtattataca ... ttgtcaacagCCCGTATTACAACATTGAGTTAAAGGAAATACATGTTGCCGGAAAGGCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctaatgttctgtatatttaatacatttccttattaattttggattgtcaacagCCCGTATTACAACATTGAGTTAAAGGAAATACATGTTGCCGGAAAGGCATTGCGGTTAGACCCAAAGATATTCAACAGCAAACATGGCACTGTCTTAGAT
                                tattaat  putative branch site (score: 2)
        ttctgtatatttaata  TA-rich tract