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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactgttctattattcccaccactgccatttgcgtaacccgtatgtcccttgacttataacaagtactggttccaactcttctcattcatgttgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG

Basic information

species Zea mays
transcript GRMZM2G124557_T04
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G124557_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os08g40140.2 (Oryza sativa), 3'ss of exon 7
gtaactgttctattattcccaccactgccatttgcgtaacccgtatgtcccttgacttataacaagta-------ctggttccaactcttctcattca---------------------tgttgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG------------------------
|||| || |  |  | ||   |  |||   |||| ||||||  | ||||| || |   |  | || ||       |  ||||| | ||||  |||| |                     |||| || || ||||||| || || || || ||||||||||||||||||||||| || |||||||| ||||| ||||||||| ||||||                        
gtaaatgcttga--aatcttgcatctgatttttgtgtaacc-atgtgtccattaatcaaataaaaatatctgtctcctgttcccagtctttccatttacattttttaaatatataatcttgttcattggtagGACAAGGAAAATGGTGGAATTTCAGATAGACCAGATAATGCGGTAGATATCTACCACACATACTTTGGAGTTGCAGGTGTTTATATTTCTAACCGCAGTT

upper sequence: GRMZM2G124557_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os08g40140.1 (Oryza sativa), 3'ss of exon 7
gtaactgttctattattcccaccactgccatttgcgtaacccgtatgtcccttgacttataacaagta-------ctggttccaactcttctcattca---------------------tgttgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG
|||| || |  |  | ||   |  |||   |||| ||||||  | ||||| || |   |  | || ||       |  ||||| | ||||  |||| |                     |||| || || ||||||| || || || || ||||||||||||||||||||||| || |||||||| ||||| ||||||||| ||||||
gtaaatgcttga--aatcttgcatctgatttttgtgtaacc-atgtgtccattaatcaaataaaaatatctgtctcctgttcccagtctttccatttacattttttaaatatataatcttgttcattggtagGACAAGGAAAATGGTGGAATTTCAGATAGACCAGATAATGCGGTAGATATCTACCACACATACTTTGGAGTTGCAG
















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|211265935|gb|FL477027.1|FL477027
EST:     CAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGGCCAGATAATGCAGTCGATATC
genomic: CAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC
EST: gi|166429214|gb|EG289960.1|EG289960
EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACC
EST: gi|71443998|gb|DR825048.1|DR825048
EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC
EST: gi|166573818|gb|EG319919.1|EG319919
EST:     GCATTGGATTGACAAGGAAAAGCTAACGAAATTACATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAA
genomic: GCATTGGATTGACAAGGAAAAGCTAACGAAATT-CATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAA
EST: gi|89250321|gb|DY622107.1|DY622107
EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttgacttataacaagtactggttccaactcttctcattcatgttgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG
       ttataacaa  TA-rich tract