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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCCACACCACCGCGGGCCACTGCCGCAGCCCGCCAGGGCGCGCTCTTCGTCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcctctggtttagaccccattccccatcccgccgtttccggccgccgttgaggcgtgaagtcgtctcccgtccctttgggagtttgggttttt...

Basic information

species Zea mays
transcript GRMZM2G025854_T01
intron # 1
splice site 5'
intron type U2

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|211022177|gb|FL153050.1|FL153050
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211456111|gb|FL153032.1|FL153032
EST:     TCGCCCGCTGCTCCCCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022165|gb|FL153038.1|FL153038
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCGATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022178|gb|FL153051.1|FL153051
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022173|gb|FL153046.1|FL153046
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022172|gb|FL153045.1|FL153045
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211456114|gb|FL153035.1|FL153035
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCGATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022174|gb|FL153047.1|FL153047
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211456113|gb|FL153034.1|FL153034
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCGATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022175|gb|FL153048.1|FL153048
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211456115|gb|FL153036.1|FL153036
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCGATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|89759099|gb|DY688027.1|DY688027
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211024619|gb|FL153052.1|FL153052
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|50333167|gb|CO528293.1|CO528293
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|74238594|gb|DT646508.1|DT646508
EST:     TCG-CCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022168|gb|FL153041.1|FL153041
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCCACACCACCGCGGGCCACTGCCGCAGCCCGCCAGGGCGCGCTCTTCGTCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcctctggtttagaccccattccccatcccgccgtttccggccgccgttgaggcgtgaagtcgtctcccgtccctttgggagtttgggttttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC