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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctgtatttctgcgagtgtattatgaaagcatactatgctaactcagttatttacttgctatgacttatgcttctgaaggcagCTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAGGACCATCTACTCTCGCTACATATAG

Basic information

species Zea mays
transcript GRMZM2G401934_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G401934_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g09000.1 (Oryza sativa), 3'ss of exon 3
gtatgctgta--tttctgcgagtgtattatgaaagcata-ctatgcta-------actcagttatttacttgctatgacttatgcttctgaaggcagCTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAGGACCATCTACTCTCGCTACATATAG
|| ||    |  | |||||  |  |   || || ||||| ||||||||       |  ||  |||||| ||  ||| |||| ||||||||||||||||| ||||||||||||| || ||||||||||| || || ||||||||||||| | ||||||||||| ||  ||||||
gtctgggaaaactatctgcatgccttgaattaacgcatagctatgctagactgccagccatatatttattttgtattacttgtgcttctgaaggcagCTTTAGTGGTGGATCCAGTTATGGTGTCCACAAGTGGAGATACTCTTTCAGAATCATCTACTCTCTCTGTATATAG
















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|211201984|gb|FL401723.1|FL401723
EST:     TGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAG                         CTCTAGTGGTGGATCCGG
genomic: TGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAGgtatgctgta ... ctgaaggcagCTCTAGTGGTGGATCCGG
EST: gi|211080316|gb|FL423993.1|FL423993
EST:     TGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAG                         CTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAG
genomic: TGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAGgtatgctgta ... ctgaaggcagCTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAG
EST: gi|211204885|gb|FL411800.1|FL411800
EST:     TGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAG                         CTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAG
genomic: TGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAGgtatgctgta ... ctgaaggcagCTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAG
EST: gi|211420915|gb|FL387494.1|FL387494
EST:     TGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAG                         CTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAG
genomic: TGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAGgtatgctgta ... ctgaaggcagCTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAG
EST: gi|71430480|gb|DR811530.1|DR811530
EST:     TGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAG                         CTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAG
genomic: TGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAGgtatgctgta ... ctgaaggcagCTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatactatgctaactcagttatttacttgctatgacttatgcttctgaaggcagCTCTAGTGGTGGATCCGGTCATGGTGTCCACCAGCGGTGATACTCTTTCAGGACCATCTACTCTCGCTACATATAG
        tgctaac  putative branch site (score: 1)
                                        tgcttct  putative PPT
                   ttatttactt  TA-rich tract