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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaactgaaggtgctattcggaattcagttttaaaatatccttattccccttgtgatctagtcacgatctgctgtattttatatgttttatttctctcagGTGAACCAGAAGATGATGCTAACTCTGACAGCAAGCATTATGTACTGGTATTTGAAAAGGCCAACATCACAATCATTGGACTCTGAAAACGGGAGTTCAT

Basic information

species Zea mays
transcript GRMZM2G081380_T02
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081380_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os01g33080.1 (Oryza sativa), 3'ss of exon 12
-------------------------------------------------------------------------gcaactgaaggtgctattcggaattcagtt------ttaaaatatccttattccccttgtgatct---------agtcacgatctgctgtattttatatgttttatttctctcagGTGAACCAGAAGATGATGCTAACTCTGACAGCAAGCATTATGTACTGGTATTTGAAAAGGCCAACATCACAATCATTGGACTCTGAAAACGGGAGTTCAT
                                                                           || |||||    ||   | || |   ||       | || || |     | | |||||||| |         | | |  || |||  ||   | |   ||| || | | ||||||||||||||| |||||||||||  ||||||||||||| ||||||||| ||||||| | ||||||||||   ||||||||| | |||||||| |||||||
gtaagaaaattgattgaaagcataacatttattctttgtactttgttactatgaaatttatgcatttttgtgaagaattgaagtccataaaagcaactagattgatatgctcaagtagcagaccttctcttgtgatgtcaatggagtaattaacatgtgcaatacgattttgttttgatgtgtttcagGTGAACCAGAAAATGATGCTAACCTTGACAGCAAGCATAATGTACTGGCATTTGAAGAAGCCAACATCATTTTCATTGGACACCGAAAACGGCAGTTCAT

upper sequence: GRMZM2G081380_T02 (Zea mays), 3'ss of exon 12
lower sequence: Vv07s0141g00720.t01 (Vitis vinifera), 3'ss of exon 1
----gcaactgaaggtgctattcggaattcagttttaaaatatccttattccccttgtgatctagtcacgatctgctgtattttatatgttttatttctctcagGTGAACCAGAAGATGATGCTAACTCTGACAGCAAGCATTATGTACTGGTATTTGAAAAGGCCAAC---ATCACAATCAT-TGGACTCTGAAAACGGGAGTTCAT
    |    | ||  ||  | |     |  ||  ||  || |    | |  |  || |    |  |  |   ||    | || ||  |   | |  |   |||||| || ||||||||||| || || ||||||||||| || |||||||||| | |||||   ||      |  |  | ||| ||||   | | |  | |||     
caatgtgcatcaaactg--acttcagctaaagccttttaacagaggtgtatctattttccctttttttcctccta--atcttatacctagctgaacttcatcagGTAAATCAGAAGATGATCCTCACACTGACAGCAAGTATCATGTACTGGTTTCTGAAACAACCTGTTGAAGAAAGACCATCTGGAGCTTCAGATAGTGAGA----
















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|13178229|gb|BG349487.1|BG349487
EST:     CTAGGAAGCTTGGTTGCTCCANNNNNNNGTTACCAGAAGATATATTGGAG                         GTGAACCAGAAGATGATGCTAACTCTGACAGCAAGCATTATGTACTG
genomic: CTAGGAAGCTTGGTTGCTCCATTTTTTTGTTACCAGAAGATATATTGGAGgtaataattt ... tttctctcagGTGAACCAGAAGATGATGCTAACTCTGACAGCAAGCATTATGTACTG
EST: gi|13178228|gb|BG349486.1|BG349486
EST:     CTAGGAAGCTTGGTTGCTCCANNNNNNNGTTACCAGAAGATATATTGGAG                         GTGAACCAGAAGATGATGCTAACTCTGACAGCAAGCATTATGTACTGGTAT
genomic: CTAGGAAGCTTGGTTGCTCCATTTTTTTGTTACCAGAAGATATATTGGAGgtaataattt ... tttctctcagGTGAACCAGAAGATGATGCTAACTCTGACAGCAAGCATTATGTACTGGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccccttgtgatctagtcacgatctgctgtattttatatgttttatttctctcagGTGAACCAGAAGATGATGCTAACTCTGACAGCAAGCATTATGTACTGGTATTTGAAAAGGCCAACATCACAATCATTGGACTCTGAAAACGGGAGTTCAT
                                      tgttttatttctctc  CT-rich tract
                           tgtattttatatgttt  TA-rich tract