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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctttccttcttttacaatccgaaatcattatcacatagtatgttcgctattattgtgtaaattatcaatgtttgtaatattttctctctgtttactgtagAATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAACAGCAAAAAGGTCATCTTTCAGGTCCACAG

Basic information

species Zea mays
transcript GRMZM2G128080_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G128080_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g16100.1 (Oryza sativa), 3'ss of exon 2
ctttccttcttttacaatccgaaatca-ttatcaca-tagtatgttcgctattattgtgtaaattatcaatgtttgtaatattttctc-tctgtttac----tgtagAATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAACAGCAAAAAGGTCATCTTTCAGGTCCACAG
   | |  ||| ||||  | |||| || ||||   | ||| | | |   |||  || | ||| ||| |||| ||| || |||| |||| || |||| |    |||||||||| || || ||||||||||||||||| ||||||||| | ||||||||||||||||||| |||||||||||| |||||
---ttccccttgtacatgctgaaagcagttatggtagtagcaggctg--tatctttct-taagttagcaatattttta-tattatctcatcagttttccatatgtagAATGATAAAAGGGAAAGGCTTGTGAAAGCAAGTCGGGATTTGACAATGAACAGCAAAAAGGCCATCTTTCAGGTTCACAG

upper sequence: GRMZM2G128080_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT2G03780.1 (Arabidopsis thaliana), 3'ss of exon 2
ctttccttctt-ttacaatccgaaatcattatcacatagtatgttcgctattattgtgtaaattatcaatgtttgtaatattttc-tctctgtttact-gtagAATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAACAGCAAAAAGGTCATCTTTCAGGTCCACAG
   || ||| | || |||   |   |   ||  | ||  |||    || | |   |  ||||  |  |   ||| |    |||   |   |||||  | ||||||||| ||| |||||||  | ||||| |  ||||| ||||| ||||||||||||||||| || ||||||||||| |||||
tgatctttcatgttgcaacttgggttttgtaatagattctata---gcgaattgagaataaaggaggaggctttatctggtttctatgattgtttctttgtagAATGAGAAGCGAGAAAGAGTGGTGAAGGTAAGTCGTGATATCACAATGAACAGCAAAAAAGTTATCTTTCAGGTTCACAG
















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|211191937|gb|FL162063.1|FL162063
EST:     CCGCGATGAAGGCGGAGTTCGCCAAGCACGCCGAGTACCTCAACACCCTG                         AATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAAC
genomic: CCGCGATGAAGGCGGAGTTCGCCAAGCACGCCGAGTACCTCAACACCCTGgtactttcgc ... tttactgtagAATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAAC
EST: gi|211191936|gb|FL162062.1|FL162062
EST:     CCGCGATGAAGGCGGAGTTCGCCAAGCACGCCGAGTACCTCAACACCCTG                         AATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAAC
genomic: CCGCGATGAAGGCGGAGTTCGCCAAGCACGCCGAGTACCTCAACACCCTGgtactttcgc ... tttactgtagAATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAAC
EST: gi|211191938|gb|FL162064.1|FL162064
EST:     CCGCGATGAAGGCGGAGTTCGCCAAGCACGCCGAGTACCTCAACACCCTG                         AATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAAC
genomic: CCGCGATGAAGGCGGAGTTCGCCAAGCACGCCGAGTACCTCAACACCCTGgtactttcgc ... tttactgtagAATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAAC
EST: gi|211191935|gb|FL162061.1|FL162061
EST:     CCGCGATGAAGGCGGAGTTCGCCAAGCACGCCGAGTACCTCAACACCCTG                         AATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAAC
genomic: CCGCGATGAAGGCGGAGTTCGCCAAGCACGCCGAGTACCTCAACACCCTGgtactttcgc ... tttactgtagAATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctattattgtgtaaattatcaatgtttgtaatattttctctctgtttactgtagAATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAACAGCAAAAAGGTCATCTTTCAGGTCCACAG
                                  ttttctctctgtttac  CT-rich tract
          tgtaaattatcaatgt  TA-rich tract