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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCAGCTGCAACAAAACTAACCATGGATGGCACTAGCTTTGACCTGACAGAGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaacttttacatgtcttagacacatcatttctgcattacaattatgatttgtatcgaaagaaatgctagttgaagtataaacatgaacggtcattgcag

Basic information

species Zea mays
transcript GRMZM2G359397_T01
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|50327330|gb|CO522456.1|CO522456
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|211387175|gb|FL037068.1|FL037068
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|31353662|gb|CD438019.1|CD438019
EST:     AGCACGAAGGTTCAAATCTGTCTCCGTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|211387176|gb|FL037069.1|FL037069
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|211389809|gb|FL037082.1|FL037082
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|76282140|gb|DV021708.1|DV021708
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|211387172|gb|FL037065.1|FL037065
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|211389808|gb|FL037081.1|FL037081
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|211389807|gb|FL037080.1|FL037080
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|211387177|gb|FL037070.1|FL037070
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|211387183|gb|FL037076.1|FL037076
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
EST: gi|211387174|gb|FL037067.1|FL037067
EST:     AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAG                         TGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT
genomic: AGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGT

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: 14

TTCAGCTGCAACAAAACTAACCATGGATGGCACTAGCTTTGACCTGACAGAGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGTGAAACAAAG


Block sizes: 48 (upstream exon), 41 (downstream exon)
Score: 14

TTCAGCTGCAACAAAACTAACCATGGATGGCACTAGCTTTGACCTGACAGAGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGTGAAACAAAG


Block sizes: 38 (upstream exon), 49 (downstream exon)
Score: 7

TTCAGCTGCAACAAAACTAACCATGGATGGCACTAGCTTTGACCTGACAGAGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGTGAAACAAAG


Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 6

TTCAGCTGCAACAAAACTAACCATGGATGGCACTAGCTTTGACCTGACAGAGCACGAAGGTTCAAATTTGTCTCCTTTTCTACTCAAACTTTTTAATGAGgtttgtaact ... gtcattgcagTGGGATGATCGCAAGACAAGGGGCTTGTTTCACCATGACATCAGTTCCTGTGAAACAAAG