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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacccgaaccacgtcgttccttattcgtatcgatgcttcagataaaccacctacctaccttcgcatctgccatctttgcatcgccagGGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATTGCTAGGAAGGGGCTGGACTCGTTCAGGGCACGCCTCAAGAACGGCATCC

Basic information

species Zea mays
transcript GRMZM2G043141_T02
intron # 2
splice site 3'
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|211417944|gb|FL367137.1|FL367137
EST:     CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAG                         GGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
genomic: CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAGgtacccgaac ... gcatcgccagGGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
EST: gi|211457928|gb|FL459110.1|FL459110
EST:     CGTACAACGAGAAGCCAGTCCTCTYGCGGCCCCAGCACAGCTTYTACGAG                         GGAGAGGACTACCTTGAGGTGGACCTTGACATCCMCCGGTTCAGCTACATT
genomic: CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAGgtacccgaac ... gcatcgccagGGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
EST: gi|113701141|gb|EE678645.1|EE678645
EST:     CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTTTACGAG                         GGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
genomic: CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAGgtacccgaac ... gcatcgccagGGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
EST: gi|211375414|gb|FL332337.1|FL332337
EST:     CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAG                         GGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
genomic: CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAGgtacccgaac ... gcatcgccagGGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
EST: gi|211327218|gb|FL357902.1|FL357902
EST:     CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAR                         GGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
genomic: CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAGgtacccgaac ... gcatcgccagGGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
EST: gi|71447004|gb|DR828054.1|DR828054
EST:     CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAG                         GGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
genomic: CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAGgtacccgaac ... gcatcgccagGGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
EST: gi|6952640|gb|AW424708.1|AW424708
EST:     CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAG                         GGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT
genomic: CGTACAACGAGAAGCCAGTCCTCTCGCGGCCCCAGCACAGCTTCTACGAGgtacccgaac ... gcatcgccagGGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcttcagataaaccacctacctaccttcgcatctgccatctttgcatcgccagGGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATTGCTAGGAAGGGGCTGGACTCGTTCAGGGCACGCCTCAAGAACGGCATCC
                                        tctttgc  CT-rich tract
       agataaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacccgaaccacgtcgttccttattcgtatcgatgcttcagataaaccacctacctaccttcgcatctgccatctttgcatcgccagGGAGAGGACTACCTTGAGGTGGACCTTGACATCCACCGGTTCAGCTACATTGCTAGGAAGGGGCTGGACTCGTTCAGGGCACGCCTCAAGAACGGCATCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC