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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTCTTTGGGAAACGTGGGAAGAGTGGGCTTGTGGCCCTCAACCTAGATCTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgactaacatattcccatgttttttaccagcacaaactttgattactaaagctatttattatctttatgaatgaatttgctcacttatctaggtcgag

Basic information

species Zea mays
transcript GRMZM2G034083_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G034083_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os12g37870.1 (Oryza sativa), 5'ss of exon 2
-----TGCTCTTTGGGAAACGTGGGAAGAGTGGGCTTGTGGCCCTCAACCTAGATCTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgactaacatattcccatgttttttaccagcacaaactttgattactaaagctatttattatctttatgaatgaatttgctcacttatctaggtcgag
     |||| ||||| ||||||||||||||||| |||||||||||||||||||||||||| ||||| |||||||| ||||| |||||||||||||||||||||  || |      |||| |||||||| |||    |     |||| ||| |   || | |||||  | | || |  |      | |||    ||||  ||      
CGACATGCTGTTTGGCAAACGTGGGAAGAGTGGCCTTGTGGCCCTCAACCTAGATCTTGCTCAAGTCCGCCAATTCGTCAAAGAGCGGTTGGGAGTTGAGgta--gttat-----acattttcccatgctttgcctcta---aaaccttgttagttataactattc-taagctatccgg-----tatgcctg-ttatgcag------
















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|32927225|gb|CF032037.1|CF032037
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|211020100|gb|FL063973.1|FL063973
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|13150055|gb|BG320377.1|BG320377
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
EST: gi|148986293|gb|EE030028.2|EE030028
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
EST: gi|149110454|gb|EE190425.2|EE190425
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
EST: gi|148957836|gb|EC903982.2|EC903982
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGACGTCCA                         G
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgag-
EST: gi|148957836|gb|EC903982.2|EC903982
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGACGTCCA                         G
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgag-
EST: gi|32849716|gb|CD989397.1|CD989397
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|149070778|gb|EE159189.2|EE159189
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|149000525|gb|EE037708.2|EE037708
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|37416539|gb|CF645921.1|CF645921
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CN                         AGATGGGTGGCTGCAAAGCTCCAATTA
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTA
EST: gi|31356652|gb|CD441009.1|CD441009
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
EST: gi|149008523|gb|EE040696.2|EE040696
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|21987306|gb|BQ778834.1|BQ778834
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAGCCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|211020099|gb|FL063972.1|FL063972
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|211133983|gb|FL063982.1|FL063982
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|148947869|gb|EC893362.2|EC893362
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|148958422|gb|EC904655.2|EC904655
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
EST: gi|31355046|gb|CD439403.1|CD439403
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
EST: gi|78103681|gb|DV522109.1|DV522109
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
EST: gi|148951643|gb|EC897387.2|EC897387
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|9566469|gb|BE475978.1|BE475978
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAGCCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
EST: gi|148955951|gb|EC901669.2|EC901669
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
EST: gi|211020096|gb|FL063969.1|FL063969
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|26558189|gb|CA830424.1|CA830424
EST:     CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT-CG                         AGATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAGCCATTTG
genomic: CTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgacta ... ctaggtcgagA--TGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTG
EST: gi|149113031|gb|EE295802.2|EE295802
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
EST: gi|148935016|gb|EC879057.2|EC879057
EST:     TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTCGA-G                         ATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT
genomic: TGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGT--ACTgtcacgacta ... ctaggtcgagATGGGTGGCTGCAAAGCTCCAATTACAACCTTCATAGTTGAACCATTTGT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTCTTTGGGAAACGTGGGAAGAGTGGGCTTGTGGCCCTCAACCTAGATCTTGCCCAAGTTCGCCAATTTGTCAAGGAGCGGTTGGGAGTTGAGGTACTgtcacgactaacatattcccatgttttttaccagcacaaactttgattactaaagctatttattatctttatgaatgaatttgctcacttatctaggtcgag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG