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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcgcctcacggcccctgacctctatacgtcccttgctctgaccttctgcaatttctgacaaaatttgacaaaattctgcactccatttctcattttttcatcggtaaatgaattgatatattatatttttgcagGTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTCAATGTGGCCCAGCCCTTCTTCGCGACCCTGAATGGCGTGTCGTCCATGC

Basic information

species Zea mays
transcript GRMZM2G303752_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G303752_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g07080.2 (Oryza sativa), 3'ss of exon 1
gtcgcctcacggcccctgacctctatacgtcccttgctctgaccttctgcaatttctgacaaaatttgacaaaattctgcactccatttctcattttttcatcggtaaatgaattgatatattatatttttgcagGTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTCAATGTGGCCCAGCCCTTCTTCGCGACCCTGAATGGCGTGTCGTCCATGC
|||  ||||  || |  | |  |    | |||  |  | |    |||     || ||  |||| ||   |   |||  ||| | ||| |||  ||   |  |    | |  |||     |||   |||||   |||| ||||   | || ||||| || ||||||||  |||| ||||| |||| ||||||||| ||||||||||||||||| ||||| ||||| || |||||||
gtctgctcagtgctcacggctccaccccatcctctcttgttctgttcatgcgttgcttgcaaagtt--gctggatt--gcattgcatctcttgttcacttctgatcagaaaaat----gtatggaattttgcaagGTTCTTGGAATCATCATCTCCCCGACGAGAGAGCTGTCTTCGCAGATATACAATGTGGCTCAGCCCTTCTTCGCGACGCTGAAGGGCGTCTCATCCATGC
















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|148986421|gb|EE030162.2|EE030162
EST:     CCGTCGTTGAGATCCTCCGCCGCCGCTCCTCCCCGCCCAAGTCACACGAG                         GTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTC
genomic: CCGTCGTTGAGATCCTCCGCCGCCGCTCCTCCCCGCCCAAGTCACACGAGgtcgcctcac ... atttttgcagGTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTC
EST: gi|76282665|gb|DV022233.1|DV022233
EST:     CCGTCGTTGAGATCCTCCGCCGCCGCTCCTCCCCGCCCAAGTCACACGAG                         GTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTC
genomic: CCGTCGTTGAGATCCTCCGCCGCCGCTCCTCCCCGCCCAAGTCACACGAGgtcgcctcac ... atttttgcagGTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTC
EST: gi|32801966|gb|CD954202.1|CD954202
EST:     GATCCTCCGCCGCCGCTCCTCNCCGCNCAAGTCACACGAG                         GTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTC
genomic: GATCCTCCGCCGCCGCTCCTCCCCGCCCAAGTCACACGAGgtcgcctcac ... atttttgcagGTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTC
EST: gi|148963948|gb|EE015072.2|EE015072
EST:     CCGTCGTTGAGATCCTCCGCCGCCGCTCCTCCCCGCCCAAGTCACACGAG                         GTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTC
genomic: CCGTCGTTGAGATCCTCCGCCGCCGCTCCTCCCCGCCCAAGTCACACGAGgtcgcctcac ... atttttgcagGTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actccatttctcattttttcatcggtaaatgaattgatatattatatttttgcagGTCCTTGCTCTGATTATCTCTCCCACGAGAGAATTGTCCTCGCAAATATTCAATGTGGCCCAGCCCTTCTTCGCGACCCTGAATGGCGTGTCGTCCATGC
                               aattgat  putative branch site (score: 4)
                                            tattttt  putative PPT
                         taaatgaattgatata  TA-rich tract