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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCTGATGCTGCTGGGGATCAAGAAGACCACGCCGGCCATCGCATCCGCCATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaattaattaatttatttattatactccagtgagcgagcgagcgaccccggccggttgccttcgaagtcacttcctttttttttaaccaaaacag

Basic information

species Zea mays
transcript GRMZM2G135044_T02
intron # 3
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|71298977|gb|DR785482.1|DR785482
EST:     ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAG                         GCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
genomic: ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
EST: gi|93282539|gb|EB674803.1|EB674803
EST:     ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAG                         GCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
genomic: ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
EST: gi|88755773|gb|DY539914.1|DY539914
EST:     ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAG                         GCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
genomic: ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
EST: gi|94472819|gb|EB701777.1|EB701777
EST:     ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAG                         GCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
genomic: ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
EST: gi|50337658|gb|CO532784.1|CO532784
EST:     ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAG                         GCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
genomic: ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
EST: gi|71426206|gb|DR807256.1|DR807256
EST:     ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAG                         GCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
genomic: ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
EST: gi|18169261|gb|BM339101.1|BM339101
EST:     ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAG                         GCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
genomic: ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
EST: gi|78088288|gb|DV516681.1|DV516681
EST:     ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAG                         GCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
genomic: ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
EST: gi|78121589|gb|DV539973.1|DV539973
EST:     ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAG                         GCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
genomic: ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
EST: gi|93282784|gb|EB675048.1|EB675048
EST:     ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAG                         GCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG
genomic: ATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGG

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: 45 (upstream exon), 49 (downstream exon)
Score: 28

CGCTGATGCTGCTGGGGATCAAGAAGACCACGCCGGCCATCGCATCCGCCATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGGGACGGTGGTGTGCCTGGCGGGAGCGCTGGCCATGGGCTTCCTGCACAGC


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 53

CGCTGATGCTGCTGGGGATCAAGAAGACCACGCCGGCCATCGCATCCGCCATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGGGACGGTGGTGTGCCTGGCGGGAGCGCTGGCCATGGGCTTCCTGCACAGC


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 17

CGCTGATGCTGCTGGGGATCAAGAAGACCACGCCGGCCATCGCATCCGCCATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGGGACGGTGGTGTGCCTGGCGGGAGCGCTGGCCATGGGCTTCCTGCACAGC


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 37

CGCTGATGCTGCTGGGGATCAAGAAGACCACGCCGGCCATCGCATCCGCCATGCCCAACCTCAGCCCCGGCCTCATCTTCATCGTCGCAGCCTGTTTCAGgtacattaat ... accaaaacagGCTGGAGAGGTTCGACAGGGCGTGCAAGTACACGCAGGCGAAGATGGCGGGGACGGTGGTGTGCCTGGCGGGAGCGCTGGCCATGGGCTTCCTGCACAGC