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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtattattattaaactaatgacatacatgtacatttttagccgttgctttattaatttattggaccttttttatgtgtgaaataatagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCGTTGCACAGCCAGGGAGAG

Basic information

species Zea mays
transcript GRMZM2G165926_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165926_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g13970.2 (Oryza sativa), 3'ss of exon 8
gtatgtattattattaaactaatgacatac--atgtacatttttagccgttgctttattaatttattggaccttttttatgtgtgaaataatagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCGTTGCACAGCCAGGGAGAG
||| |||||  | |  ||| |||||||| |  || || |  | |   | |||| | || | |   |    |  ||||      | ||||  ||||| ||||||||||| |||||||| || ||||| ||||||||||||||||| |||||  | ||||| |||
gtaagtatttgtttagaaccaatgacatgctaatctatagatattttcattgcgt-atgactgactcttgctgttttcccccttcaaattgtagCTCCCTGGTGTTGACCCCAATGACCCCTCTGTGAAAGATTTGCTGGCATCATTGCATGGGCAGGGCGAG

upper sequence: GRMZM2G165926_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G05250.2 (Glycine max), 3'ss of exon 8
gtatgtattattattaaactaatgacatacatgtacatttttagc-cgttgctttattaatttattggacctttttta-tgtgtgaaata----------atagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCGTTGCACAGCCAGGGAGAG
    ||||   ||| || | | | |  |     |    ||| |     ||  |  | | ||| |    |  || || | ||  | | ||             |||||||||| ||||| || ||||| |||||||| |||||||||||||| ||  |||| |  |||   |||
----gtatgtctataaatccagtaaattttccatgttctttaaatgtattaatagaatgattgacaatatgttcttaactgaataatattcattgcttctgcagCTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCCATGCAAAATCAGTCTGAG

upper sequence: GRMZM2G165926_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA16G23590.1 (Glycine max), 3'ss of exon 8
gtatgtattattattaaactaatgacatacatgtacatttttagc-cgttgctttattaatttattggacctttttta-tgtgtgaaata----------atagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCGTTGCACAGCCAGGGAGAG
    ||||   ||| || | | | |       ||    ||| |     ||| |  | | ||| |    |  || |  | ||  | | ||             |||||||||| ||||| || |||||||||||||| |||||||||||||| || ||||| |  |||   |||
----gtatgtctataaatccagtaaatgttccgtgttctttaaatgtattgatagaatgattgacaatatgttctgcactgaataatattcgttgcttctgcagCTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAG

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|14244816|gb|BG842754.2|BG842754
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCG
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... gaaataatagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCG
EST: gi|33097806|gb|CF057766.1|CF057766
EST:     AGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCG
genomic: AGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... gaaataatagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCG
EST: gi|37383796|gb|CF628931.1|CF628931
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCG
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... gaaataatagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttagccgttgctttattaatttattggaccttttttatgtgtgaaataatagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCGTTGCACAGCCAGGGAGAG
                tattaat  putative branch site (score: 2)
              tttattaatttattgg  TA-rich tract