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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaatgtttgggcatgaatatgtcgcagcatgtaatgaagcaagtaaatttttgcttgttcagttttatgatccgctgcttgtgtacttactctattcagGAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCAGTTATGGCAGAAACTATGTTAGAGGCAACCATTCAGTACCAATCTAGTC

Basic information

species Zea mays
transcript GRMZM2G096470_T01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G096470_T01 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os01g61860.2 (Oryza sativa), 3'ss of exon 15
-ttaatgtttgggcatgaatatgtcgcagcatgtaatgaagcaagtaaatttttgcttgttcagttttatgatccgctgcttgtg-tactta---ctctattcagGAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCAGTTATGGCAGAAACTATGTTAGAGGCAACCATTCAGTACCAATCTAGTC
       ||| |   | | | | |     ||| ||||  ||||| || ||    || |||||| | | ||||| | ||  || |   | ||     | ||| ||||| ||||| |||| ||||||||||||||| || |||||||||||||||||||| ||||||||||||||| | || |||||  | ||||| ||||| || |
gactccattttgctgtcattttttt-tgacatataatctagcaaatacat----gcctgttcaatataatgattctcttgttataacatttgactttgtatgcagGAAAAGTATGAGGAAGCTATGGCTTCACTAGCACAAATGGAGAACAGAGCAGTCATGGCAGAAACTATGCTGGAAGCAACACTGCAGTATCAATCAAGCC

upper sequence: GRMZM2G096470_T01 (Zea mays), 3'ss of exon 15
lower sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 15
ttaatgtttgggcatgaatatgtcgcagcat-gtaatgaagcaagtaaatttttgcttgttcagttttatgatccgctgcttgtgtacttactctatt--cagGAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCAGTTATGGCAGAAACTATGTTAGAGGCAACCATTCAGTACCAATCTAGTC
   ||||    || |   |||   ||   ||  || |    |  ||| | |  ||  | ||   | ||   ||    | |     ||| || | ||||  ||||| ||||| || | ||| |  ||| |||||||| |||||||||| || ||||||||||||||| ||||| | ||||| ||  | |||||||||||| | |
--catgtcaatgcctttttatactgctatattatatttcgactggtacaatggtgaatttttc-tattgcaatatcttacaatcatacatattatattggcagGAAAAGTATGAAGAAGCAACTGCTGCACTTGCTGAAATGGAGAAGAGGGCAGTTATGGCAGAATCTATGCTGGAGGCTACATTGCAGTACCAATCTGGCC

upper sequence: GRMZM2G096470_T01 (Zea mays), 3'ss of exon 15
lower sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 15
ttaatgtttgggcatgaatatgtcgcagcat-gtaatgaagcaagtaaatttttgcttgttcagttttatgatccgctgcttgtgtacttactctatt--cagGAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCAGTTATGGCAGAAACTATGTTAGAGGCAACCATTCAGTACCAATCTAGTC
   ||||    || |   |||   ||   ||  || |    | || | | |  ||  | ||  ||  |   |     | |     ||| || | ||||  ||||| ||||| || | ||| |  ||| |||||||| |||||||||| |||||||||||||||||| ||||| | ||||| ||  | |||||||||| | | |
--catgtcaatgcctttttatactgctatattatatttcgactagcacaatgatgaat-ttttgtactgcaacatcttacaatcatacatattatattgacagGAAAAGTATGAAGAAGCAACTGCTGCACTTGCTGAAATGGAGAAGAGAGCAGTTATGGCAGAATCTATGCTGGAGGCTACATTGCAGTACCAATGTGGCC

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|67021387|gb|CO450136.1|CO450136
EST:     TTGCAGAGCAAGATGCTGCTGCTCAGAAATATGCTGCACATATACTTCAG                         GAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCA
genomic: TTGCAGAGCAAGATGCTGCTGCTCAGAAATATGCTGCACATATACTTCAGgttatttcag ... ctctattcagGAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCA
EST: gi|67018060|gb|CO446809.1|CO446809
EST:     TTGCAGAGCAAGATGCTGCTGCTCAGAAATATGCTGCACATATACTTCAG                         GAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCA
genomic: TTGCAGAGCAAGATGCTGCTGCTCAGAAATATGCTGCACATATACTTCAGgttatttcag ... ctctattcagGAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCA
EST: gi|211105491|gb|FL194154.1|FL194154
EST:     TTGCAGAGCAAGATGCTGCTGCTCAGAAATATGCTGCACATATACTTCAG                         GAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCA
genomic: TTGCAGAGCAAGATGCTGCTGCTCAGAAATATGCTGCACATATACTTCAGgttatttcag ... ctctattcagGAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatttttgcttgttcagttttatgatccgctgcttgtgtacttactctattcagGAGAAGTACGAGGGAGCTATGGCTTCACTTGCTCAAATGGAGAACAGAGCAGTTATGGCAGAAACTATGTTAGAGGCAACCATTCAGTACCAATCTAGTC
                                       tacttac  putative branch site (score: 1)
                                         cttactct  CT-rich tract
                  ttttatgat  TA-rich tract