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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatttgtttctgttgtctaaccatgcacatgacctttacaaatatagtactctgtactacttgtcccatgatgtaatggcttacccattgcaatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAACTATTCTTTACCCTAATGCAGGTGGTAACATCCACACTTTCAGAGCCAT

Basic information

species Zea mays
transcript GRMZM2G162175_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G162175_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g06790.2 (Oryza sativa), 3'ss of exon 5
--------tatttgtttctgttgtctaaccatgcacatgacctttacaaatatagtactctgtact----acttgtcccatgatgtaatggcttacccattgc--aatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAACTATTCTTTACCCTAATGCAGGTGGTAACATCCACACTTTCAGAGCCAT
        || |  ||| || | |     |||   |      | |||  | |  | ||  | ||      |||  |  |||| | |  |   | |  |  |||  || || |||  || ||||| | |||||| | |||  |||||||| ||||||||||||| || |||||||| || |||  |||||||||||||||||||||         
tcagcaactactcatttatgctctactgtcatctgc-----ttctacttacacggcaccttctatcggtgactgataacatggtatttttattcataccctgcagAACTTTCAGTGAGACCAGCAAGGCTTGTCAGAGACCGTGAAATGTCTGCTCCAGAGACCACCATTCTTTATCCCAATAGAGGTGGTAACATCCACACTTT---------
















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|110200615|gb|EC882512.1|EC882512
EST:     ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAA                         CAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
genomic: ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAAgtgagttctg ... caatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
EST: gi|91052877|gb|EB163295.1|EB163295
EST:     ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAA                         CAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
genomic: ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAAgtgagttctg ... caatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
EST: gi|211331596|gb|FL468865.1|FL468865
EST:     ATCTTATGACTGGGTTGACATACCTGWTCATCCAATTGWTCAATTACAAA                         CAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
genomic: ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAAgtgagttctg ... caatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
EST: gi|76925182|gb|DV170317.1|DV170317
EST:     ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAA                         CAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
genomic: ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAAgtgagttctg ... caatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
EST: gi|12971808|gb|BG267668.1|BG267668
EST:     ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAA                         CAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
genomic: ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAAgtgagttctg ... caatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
EST: gi|29130501|gb|CB381205.1|CB381205
EST:     TCATCCAATTGATCAATTACAAA                         CAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCCGAGACAA
genomic: TCATCCAATTGATCAATTACAAAgtgagttctg ... caatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
EST: gi|83278650|gb|DV942658.1|DV942658
EST:     ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAA                         CAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
genomic: ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAAgtgagttctg ... caatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
EST: gi|213173437|gb|FM193786.1|FM193786
EST:     ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAA                         CAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA
genomic: ATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAAgtgagttctg ... caatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtactctgtactacttgtcccatgatgtaatggcttacccattgcaatttgcagCAAGGCCAGCCAAGCTTGTTAAAGATTGTGAAATGACTGCTCCAGAGACAACTATTCTTTACCCTAATGCAGGTGGTAACATCCACACTTTCAGAGCCAT
                                ggcttac  putative branch site (score: 3)
                         atgtaat  TA-rich tract