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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGAGTAGTGCTGCTGGAAAGGTTCCTGCTCCTGGTCAGGCCATTTACTCTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaattcacatattagcacacatcctaattgtaatttgtatcagcatgctaagctactcacttatgttatgaaaagtattcctagatggataga...

Basic information

species Zea mays
transcript GRMZM2G003692_T07
intron # 8
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|37376662|gb|CF624883.1|CF624883
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|14244326|gb|BG842296.2|BG842296
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|5343223|gb|AI795408.1|AI795408
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|14208321|gb|BG842006.1|BG842006
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|113703640|gb|EE681144.1|EE681144
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|37397592|gb|CF636096.1|CF636096
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|149101270|gb|EE187382.2|EE187382
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|32856130|gb|CD995811.1|CD995811
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|6101980|gb|AW126450.1|AW126450
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|88753506|gb|DY537647.1|DY537647
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|40337101|gb|CK371171.1|CK371171
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|37390564|gb|CF632514.1|CF632514
EST:     CCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|67023347|gb|CO452096.1|CO452096
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|31362808|gb|CD447165.1|CD447165
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|6022668|gb|AW067596.1|AW067596
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|32864069|gb|CF003751.1|CF003751
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|71759817|gb|DR957754.1|DR957754
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|211078663|gb|FL128724.1|FL128724
EST:     AATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: AATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|78021266|gb|DV489653.1|DV489653
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|6095476|gb|AW120143.1|AW120143
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|6194694|gb|AW146798.1|AW146798
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|93015973|gb|EB641493.1|EB641493
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|37387558|gb|CF630976.1|CF630976
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|60353742|gb|DN220715.1|DN220715
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|71438969|gb|DR820019.1|DR820019
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 164

ATGAGTAGTGCTGCTGGAAAGGTTCCTGCTCCTGGTCAGGCCATTTACTCTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAAACACTACAATCTTCTGCTGCAGCTTCTTCATCGCAAACACATTCTGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 422

ATGAGTAGTGCTGCTGGAAAGGTTCCTGCTCCTGGTCAGGCCATTTACTCTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAAACACTACAATCTTCTGCTGCAGCTTCTTCATCGCAAACACATTCTGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 400

ATGAGTAGTGCTGCTGGAAAGGTTCCTGCTCCTGGTCAGGCCATTTACTCTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAAACACTACAATCTTCTGCTGCAGCTTCTTCATCGCAAACACATTCTGCTG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 328

ATGAGTAGTGCTGCTGGAAAGGTTCCTGCTCCTGGTCAGGCCATTTACTCTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAAACACTACAATCTTCTGCTGCAGCTTCTTCATCGCAAACACATTCTGCTG