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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGGTTCTCATCGACGGCGTCAGCGGCTTCCCCTCCCGCCTCTCGCCAGTCGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacctctctctctctctcctcccgcctccggtggttcgttaacggcgcccaaccccggcggctgcgccgcgcgcggcttgagggcagagggagcc...

Basic information

species Zea mays
transcript GRMZM2G030280_T02
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|50331700|gb|CO526826.1|CO526826
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTAC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|89249315|gb|DY621101.1|DY621101
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211521271|gb|FL055174.1|FL055174
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211524263|gb|FL055178.1|FL055178
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211524264|gb|FL055179.1|FL055179
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|71305566|gb|DR788926.1|DR788926
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|74232819|gb|DT640733.1|DT640733
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|91872807|gb|EB402764.1|EB402764
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|60396273|gb|DN229142.1|DN229142
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211521265|gb|FL055168.1|FL055168
EST:     CGCTTCGSGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211521263|gb|FL055166.1|FL055166
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211521270|gb|FL055173.1|FL055173
EST:     CGCTTCG-SCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|94472378|gb|EB701336.1|EB701336
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211524265|gb|FL055180.1|FL055180
EST:     CGCTTCG-GCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATMTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211521262|gb|FL055165.1|FL055165
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|71426016|gb|DR807066.1|DR807066
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|76290001|gb|DV029569.1|DV029569
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211524261|gb|FL055176.1|FL055176
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211521267|gb|FL055170.1|FL055170
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|88753042|gb|DY537183.1|DY537183
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211521272|gb|FL055175.1|FL055175
EST:     SGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACT-AGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211521268|gb|FL055171.1|FL055171
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|211524262|gb|FL055177.1|FL055177
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
EST: gi|101385511|gb|EB814802.1|EB814802
EST:     CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGC                         ATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA
genomic: CGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACA

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), 46 (downstream exon)
Score: 60

GGGGTTCTCATCGACGGCGTCAGCGGCTTCCCCTCCCGCCTCTCGCCAGTCGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACAATGGCAGATGCCAGCCCTAGAACAGAAACATCAACAGATGATACTGACG


Block sizes: 47 (upstream exon), 37 (downstream exon)
Score: 32

GGGGTTCTCATCGACGGCGTCAGCGGCTTCCCCTCCCGCCTCTCGCCAGTCGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACAATGGCAGATGCCAGCCCTAGAACAGAAACATCAACAGATGATACTGACG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 51

GGGGTTCTCATCGACGGCGTCAGCGGCTTCCCCTCCCGCCTCTCGCCAGTCGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACAATGGCAGATGCCAGCCCTAGAACAGAAACATCAACAGATGATACTGACG


Block sizes: 48 (upstream exon), 43 (downstream exon)
Score: 25

GGGGTTCTCATCGACGGCGTCAGCGGCTTCCCCTCCCGCCTCTCGCCAGTCGCTTCGCGCCCTCGCCTCCGGTCCTCCGCACACTGGCCGGTGACCCTGCgtgcgtacct ... taacaagcagATAGTATTATCTGATTTTCCTGGAGGCCACATTTTAAGGACTGAGGTTACAATGGCAGATGCCAGCCCTAGAACAGAAACATCAACAGATGATACTGACG