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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgttcttctgaggattatttatctggatattgctcttggtagtttgttcaaactaatgatggaaatacttatataattctactttgcagCCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAACCCCACTAGAAAAGTCTGGATTCTGGGACGGTGTG

Basic information

species Zea mays
transcript GRMZM2G068755_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g60040.1 (Oryza sativa), 3'ss of exon 7
gtgtgttcttctgaggattatttatctggatattgctcttggtagtttgttcaaactaatgatggaaatacttatataattctactttgcagCCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAACCCCACTAGAAAAGTCTGGATTCTGGGACGGTGTG
            |    ||  ||| ||| | |||     || |||||  ||   | ||   |    |||||| | | |||| |  | | |||||||| |||||||||||||||| || |||||||||||||| || || ||||| ||||| || ||||||||||| ||||| ||||||
------------gtttgttgcttagctgaacattttcagtgttagttcatttctattacctacatgaatactgacacaattat-ttgtccagCCCCTATGGAGATCGATGAATACGATCTTGTTGATCCTGTTGATATCTTAACACCACTTGAGAAGTCTGGATTTTGGGATGGTGTG

upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA15G29520.1 (Glycine max), 3'ss of exon 4
-----------------------gtgtgttcttctgaggattatttatctggatattgctcttggtagtttgttcaaactaatgatggaaatacttatataattctactttgcagCCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAACCCCACTAGAAAAGTCTGGATTCTGGGACGGTGTG
                       || |||| ||||     | |   ||    | ||  ||||      ||||| | | |||||  |   | |  | | ||| ||  | | | |||| |||   || |||||||||||||| |||||||||||||| || || || || ||  |||| ||||| ||||| ||||| || || 
gtatgtaaaatttagtatctggagtatgtttttctttttctcagacatgctaacatgtctctc----ctttgtacta-ctaatattctcatttttcaaatactttgattat-cagCTCCTCAAGAAATCGATGAATATGAACTTGTTGATCCTGTTGATATATTGACTCCTTTAGAGAAGTCAGGATTTTGGGATGGAGTT

upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 7
lower sequence: Vv10s0116g00490.t01 (Vitis vinifera), 3'ss of exon 7
----------------------------------------------------------------------------------gtgtgttcttctgaggattat------------ttatctgg--atattgctct----tggtagtttgttcaaactaatgatggaaatactt-atata-attctactttgcagCCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAACCCCACTAGAAAAGTCTGGATTCTGGGACGGTGTG
                                                                                   ||| ||  | || |||  |             |||| ||   |||||  | |    || ||||||  | ||  |  | ||      || | ||| | |||  |  |  |||| |||  ||| || ||||||||||| ||||| |||||||| || || || |||||  |||||||||| ||||| ||||| || |||
gtatgccatcaactctatggaaacctaggagtgcatcttattgacttatttattttttattcttatttgtaataaaatatgactgtattaatttggggacaaccagcattgtccattatttgagcatattaatttcatatgttagtttact-aatgtgctcatacttgcacctgatacatattgcatctgtcagCTCCTCAGGAAATAGATGAATATGAACTTGTCGATCCTGTTGATATATTGACCCCTTTAGAAAAGTCAGGATTTTGGGATGGAGTG

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|211517040|gb|FL438272.1|FL438272
EST:     TGTGCCCGAGACAAGCGGGGCTAACACTTCTGAAGAGGCAGCGACAGATG                         CCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAA
genomic: TGTGCCCGAGACAAGCGGGGCTAACACTTCTGAAGAGGCAGCGACAGATGgtgtgttctt ... tactttgcagCCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAA
EST: gi|18963448|gb|BM660440.1|BM660440
EST:     TGTGCCCGAGACAAGCGGGGCTAACACTTCTGAAGAGGCAGCGACAGATG                         CCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAA
genomic: TGTGCCCGAGACAAGCGGGGCTAACACTTCTGAAGAGGCAGCGACAGATGgtgtgttctt ... tactttgcagCCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAA
EST: gi|32934909|gb|CF039721.1|CF039721
EST:     TGTGCCCGAGACAAGCGGGGCTAACACTTCTGAAGAGGCAGCGACAGATG                         TCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAA
genomic: TGTGCCCGAGACAAGCGGGGCTAACACTTCTGAAGAGGCAGCGACAGATGgtgtgttctt ... tactttgcagCCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAA
EST: gi|32795621|gb|CD947857.1|CD947857
EST:     TGTGCCCGAGACAAGCGGGGCTAACACTTCTGAAGAGGCAGCGACAGATG                         CCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTA
genomic: TGTGCCCGAGACAAGCGGGGCTAACACTTCTGAAGAGGCAGCGACAGATGgtgtgttctt ... tactttgcagCCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttggtagtttgttcaaactaatgatggaaatacttatataattctactttgcagCCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAACCCCACTAGAAAAGTCTGGATTCTGGGACGGTGTG
                aactaat  putative branch site (score: 2)
                                          ttctacttt  putative PPT
                            aaatacttatataatt  TA-rich tract