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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGTCCAAGATCTCGCAGCGAACTGTAGCGACGATCGGAGGCGTTCTCTTCCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaaccgctcccacttggatggtatggtagtcttgagttgtctcatgtcctgccgtaagaaacgttgtgacttccccgcag

Basic information

species Zea mays
transcript GRMZM2G151863_T01
intron # 9
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|76284808|gb|DV024376.1|DV024376
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|71764493|gb|DR962430.1|DR962430
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|148955188|gb|EC900710.2|EC900710
EST:     CCTAGGGTTTTTTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGGGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|5124014|gb|AI745855.1|AI745855
EST:     CCTAGGGTTTTCTGTTTCATCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACG
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGC-TGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACG
EST: gi|6021682|gb|AW066610.1|AW066610
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|78124080|gb|DV542464.1|DV542464
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|32824242|gb|CD963964.1|CD963964
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|76288963|gb|DV028531.1|DV028531
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|74242668|gb|DT650582.1|DT650582
EST:     CCTAGGGTTTTTTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGGGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|71775510|gb|DR973388.1|DR973388
EST:     CCTAGGGTTTTTTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGGGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|91875142|gb|EB405099.1|EB405099
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|91054364|gb|EB164782.1|EB164782
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|14243778|gb|BG841491.2|BG841491
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|32866307|gb|CF005989.1|CF005989
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|37380324|gb|CF626963.1|CF626963
EST:     CCTAGGGTTTTCTGTTTCATCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCAAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|76280827|gb|DV020395.1|DV020395
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|16925694|gb|BM078762.1|BM078762
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|78119848|gb|DV538232.1|DV538232
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|4612863|gb|AI603702.1|AI603702
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|91054363|gb|EB164781.1|EB164781
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|166486369|gb|EG123332.1|EG123332
EST:     CCTAGGGTTTTCTGTTTCATCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCAAAACATAGATGGCGTAACAA
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAA
EST: gi|71417675|gb|DR804169.1|DR804169
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|76280826|gb|DV020394.1|DV020394
EST:     CCTAGGGTTTTTTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGGGTAACAACCCAGATCGTAACAGCCCGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|86466280|gb|DY232651.1|DY232651
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGGGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
EST: gi|74242876|gb|DT650790.1|DT650790
EST:     CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAG                         GCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC
genomic: CCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGC

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: 57

GCGTCCAAGATCTCGCAGCGAACTGTAGCGACGATCGGAGGCGTTCTCTTCCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGCCTCGAGTCGCGGGCTTCGTGTAATGTACAGACACATTCGAACATTCCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 74

GCGTCCAAGATCTCGCAGCGAACTGTAGCGACGATCGGAGGCGTTCTCTTCCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGCCTCGAGTCGCGGGCTTCGTGTAATGTACAGACACATTCGAACATTCCTG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 25

GCGTCCAAGATCTCGCAGCGAACTGTAGCGACGATCGGAGGCGTTCTCTTCCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGCCTCGAGTCGCGGGCTTCGTGTAATGTACAGACACATTCGAACATTCCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 74

GCGTCCAAGATCTCGCAGCGAACTGTAGCGACGATCGGAGGCGTTCTCTTCCTAGGGTTTTCTGTTTCGTCCTACTTCTACCCTCCGTTGTGATGAAAAGgtactcgcaa ... ttccccgcagGCTGCTGATCGAAACATAGATGGCGTAACAACCCAGATCGTAACAGCACGCCTCGAGTCGCGGGCTTCGTGTAATGTACAGACACATTCGAACATTCCTG