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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattctatgataagttgattttctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagTTTTACAAATTACAACACAGCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTT

Basic information

species Zea mays
transcript GRMZM2G083344_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G083344_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g15160.1 (Oryza sativa), 3'ss of exon 5
gtgattctatgataagttgattttctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagTTTTACAAATTACAACACAGCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTT----------------
||  | | |   ||  |||||||| | ||| |||| ||  || | | | |    | |  || |||| |||| ||||| |      |||| |     ||||||| || ||||| ||||||||||||||||| |||||||||||||| || | |||||||||||| || ||| | ||||||                
gtactgcaacagtatcttgattttatttttgtatttttggccttttgcgtttcttct--ttatgctgagatttttcctgcaaataaaatgat--tgcagCTCTTGAACCATTTTTCAATGCGGCTGCTTCACAGTTTATCCTTGGCCAGCAAGTTCCATTGACGCTGTGGTTATCTCTTGCTCCGGTTGTGATAG

upper sequence: GRMZM2G083344_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G32190.1 (Glycine max), 3'ss of exon 5
gtgattctatgataagttgattttctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagTTTTACAAA-TTACAACACAGCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTT----------------
         ||||||     |||   || | ||| ||   | | |   | | ||   |    ||     |  ||   |  || | ||| ||      ||||||| || |||||||||||||| |||||||| ||||| || ||||| ||| || | ||  | ||  | |||||||| ||                 
--------gtgataaa--agtttatgatatatat-atacacacacacacacttgaaaatgcatgtatctactttctaacattgataaacttgtgtttcagCTCTTGAACCATTCTTCAATGCTGCTGCTTCACAGTTCATACTTGGTCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG

upper sequence: GRMZM2G083344_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA13G24360.1 (Glycine max), 3'ss of exon 5
---------------gtgat-tctatgataagttgattttctatttctattattatccctctacctcc-tgtttacttgtgctaagatgtttcc--agTTTTACAAA-TTACAACACAGCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTT----------------
               | ||| | || |  ||  |   | | ||| | |||   |||   | ||  |   | | ||  |   |  |  |  || |  |  || | ||| ||      ||||||| ||||||||||||||||| |||||||| ||||| || ||||| ||| || | ||  | ||  | |||||||| ||                 
gtaataaaagtttatgagatatatacgtgaaactatatatatatatatatatatatatatatatatatatatatatatacacgtatctactttctaacattaataaacttgtgtttcagCTCTTGAGCCATTCTTCAATGCTGCTGCTTCACAGTTCATACTTGGCCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG

upper sequence: GRMZM2G083344_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT5G46110.3 (Arabidopsis thaliana), 3'ss of exon 5
gtgattctatgataagttgattttctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagTTTTACAAATTACAACACAGCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTT----------------
||  || |   | || || ||     ||    | ||  ||  | ||           | |     |   |  ||   | |||| | ||    ||| |||| || |||||||||||||||||||||||||| || || ||  | |||||| |  | ||  | ||||| ||| |||||||                 
gtattttttaaacaaatttatacaacataaaaaataacatttcactg----------aatcaaaatctaacattcatacttttgcgaa----aacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAATCCATCCCCATAACACTATGGTTGTCTCTAGCTCCTGTTGTTCTTG

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|50328060|gb|CO523186.1|CO523186
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         TTTTACAAATTACAACACAGCTCTCGAGCCATTCTTCAATGCGGCTGCTTC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... atgtttccagTTTTACAAATTACAACACAGCTCTCGAGCCATTCTTCAATGCGGCTGCTTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagTTTTACAAATTACAACACAGCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTT
                                              tgtttcc  CT-rich tract
     tctattattat  TA-rich tract