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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttatttatgctaatacttttttgtgattcacatgtatcactatcactttctgcactaattttcttccaaaaaagattgacagttgctactgttgttgctgacatgattttctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTATCCCACCTGTGGTTAGAGTCGGAAATCATCGCTGGTTCTAGTAGCAACGT

Basic information

species Zea mays
transcript GRMZM2G099328_T02
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G099328_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os12g40490.1 (Oryza sativa), 3'ss of exon 13
gtaatttatttatgctaatactttt--ttgtgattcacatgtatcactatcactttctgcactaattttcttccaaaaaagattgacagttgctactgttgttgctgacatgattttctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTATCCCACCTGTGGTTAGAGTCGGAAATCATCGCTGGTTCTAGTAGCAACGT
|||  ||   | |||| ||  || |       | |||  || |   | || ||||  |||        | ||||       ||     |||  ||   |  ||  |       || ||||| | ||||||| ||    ||||||  | |||||||||||||||| ||||||||||| |||||| ||||| | ||||| || ||||||  ||||||||||| | || |
gtacatttactctgctcattgttctggcaaacaatcatgtgcacttccattacttcatgccacctccatgttccctttccaatcagt-gttagtaacatctttttt-------ttctctctctctagGATTTCGGTCTCTTAGTCCTCAGGTTGAAGAAGGCATATGCCAAGTTCTTTCCCACATGTGGCTCGAGTCAGAGATCATCTTTGGTTCTAGTATCGACAT
















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|44900705|gb|CK827250.1|CK827250
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTTTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|31363998|gb|CD448353.1|CD448353
EST:     GCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: GCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|76910058|gb|DV163680.1|DV163680
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|14203375|gb|BG837052.1|BG837052
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|31364007|gb|CD448362.1|CD448362
EST:     CCATCAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: CCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|31363993|gb|CD448348.1|CD448348
EST:     CTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: CTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|32859029|gb|CD998710.1|CD998710
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTTTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|71773668|gb|DR971565.1|DR971565
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTTGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTTTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|211535560|gb|FL475981.1|FL475981
EST:     TGGTCCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|31362847|gb|CD447204.1|CD447204
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaaaaaagattgacagttgctactgttgttgctgacatgattttctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTATCCCACCTGTGGTTAGAGTCGGAAATCATCGCTGGTTCTAGTAGCAACGT
                              tgctgac  putative branch site (score: 2)
                                      tgattttctcttttt  CT-rich tract
                                        attttctcttttta  TA-rich tract