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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggattttttctatctgaaacaagagttctggacaagaaaacgttccttaaatctgttgttattattacaatatttctgatgtgtcttgaccttctggcagGTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG

Basic information

species Zea mays
transcript GRMZM2G036872_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G036872_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g46450.1 (Oryza sativa), 3'ss of exon 1
-ggattttttctatctgaaacaagagttctggacaagaaaacgttccttaaatctgttgttattattacaatatttctgatgt-gtcttgaccttctggcagGTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
   |    ||     ||  ||  || |  || |        | |     | || |    |||| || ||| |||||||||  | ||  |   ||      |||||||||||||||||||||||||||||||||| ||||
aacagaactttcgattgggacctga-tgttgcatttttttgc-tattacatatttaccattataatcacagtatttctgacattgtaattctctctaactagGTATTTAAGAGTGGCCCTCTCTTCATATCATCCAAAG
















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|89247360|gb|DY619146.1|DY619146
EST:     CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCG                         GTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
genomic: CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCGgtgagtcgcc ... cttctggcagGTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
EST: gi|211508932|gb|FL160996.1|FL160996
EST:     CGGCTGGGAGGCAGGCGCTCGGAGTCGCGGCAGCGGCGACCGGAAACGCG                         GTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
genomic: CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCGgtgagtcgcc ... cttctggcagGTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
EST: gi|149074588|gb|EE162991.2|EE162991
EST:     CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCG                         GTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
genomic: CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCGgtgagtcgcc ... cttctggcagGTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
EST: gi|211508931|gb|FL160995.1|FL160995
EST:     CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCG                         GTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
genomic: CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCGgtgagtcgcc ... cttctggcagGTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
EST: gi|211508933|gb|FL160997.1|FL160997
EST:     CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCG                         GTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
genomic: CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCGgtgagtcgcc ... cttctggcagGTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
EST: gi|211508930|gb|FL160994.1|FL160994
EST:     CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCG                         GTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
genomic: CGGCTGGGAGGCAGGCGCGCGGAGTCGCGGCAGCGGCGACCGGAAACGCGgtgagtcgcc ... cttctggcagGTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttaaatctgttgttattattacaatatttctgatgtgtcttgaccttctggcagGTATTTAAGAGTGGCCCTCTCTTCATATCATCGAAAG
                                      tcttgac  putative branch site (score: 3)
                                            ccttct  CT-rich tract
        tgttgttattattaca  TA-rich tract