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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttccaagaaaactgccccgcgtgtcttccgtacgactagacgatcaaagcttgtttacgaatctgtgatgctgttgggcag

Basic information

species Zea mays
transcript GRMZM2G074790_T02
intron # 15
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|211267531|gb|FL446292.1|FL446292
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|5688540|gb|AI941555.1|AI941555
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCCCGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|67028320|gb|CO457069.1|CO457069
EST:     ATCATCGATCCGGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCA-CCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|5006206|gb|AI712268.1|AI712268
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|31997582|gb|CD661667.1|CD661667
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|76911014|gb|DV164129.1|DV164129
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|211184128|gb|FL012625.1|FL012625
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|166455871|gb|EG161281.1|EG161281
EST:     ATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGG
genomic: ATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGC-AAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGG
EST: gi|60394409|gb|DN227279.1|DN227279
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|24764724|gb|CA399887.1|CA399887
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|149072567|gb|EE044214.2|EE044214
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|74242337|gb|DT650251.1|DT650251
EST:     ATCATCGATCCCGTGAAGGTGATCCGCCCCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|8666121|gb|BE186937.1|BE186937
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|61118980|gb|DN559941.1|DN559941
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGTTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|71759820|gb|DR957757.1|DR957757
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|78117876|gb|DV536263.1|DV536263
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
EST: gi|31352804|gb|CD437161.1|CD437161
EST:     ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAG                         TGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC
genomic: ATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGC

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), 48 (downstream exon)
Score: 189

GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGCAACCAAGTCCAGAATAGCCAGCCGTATGCCGCAGATGAGCGGGATGGAC


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 44

GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGCAACCAAGTCCAGAATAGCCAGCCGTATGCCGCAGATGAGCGGGATGGAC


Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 34

GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGCAACCAAGTCCAGAATAGCCAGCCGTATGCCGCAGATGAGCGGGATGGAC


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 55

GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGATCCGCACCGCACTTCAAGACGCTGCAAGgtacatttcc ... tgttgggcagTGTTTCCCTGCTGATGGCAACCACGGAGGCCGCTGTCTCCGAGCTCCCGGCAACCAAGTCCAGAATAGCCAGCCGTATGCCGCAGATGAGCGGGATGGAC