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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTCGGGCTTCTCCTCTTTCTTGCACTTTCAGTCGAGTCCAGACCTGCGGAATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatcacccccttcccctcttctcctgccacacctccgccagcgctagggttttatttttgcattgctgttgctggtggtggttaccttcttctctctctcagtcgtctccctcgcag

Basic information

species Zea mays
transcript GRMZM2G083076_T03
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|211037319|gb|FK949903.1|FK949903
EST:     ATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGG                         C
genomic: ATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGAC-Ggcaagtatca ... tccctcgcag-
EST: gi|211037319|gb|FK949903.1|FK949903
EST:     ATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGG                         C
genomic: ATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGAC-Ggcaagtatca ... tccctcgcag-
EST: gi|211037319|gb|FK949903.1|FK949903
EST:     ATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGG                         C
genomic: ATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGAC-Ggcaagtatca ... tccctcgcag-
EST: gi|211037319|gb|FK949903.1|FK949903
EST:     ATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGG                         C
genomic: ATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGAC-Ggcaagtatca ... tccctcgcag-
EST: gi|211119855|gb|FL011675.1|FL011675
EST:     CTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACG                         CTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: CTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|21987705|gb|BQ779233.1|BQ779233
EST:     ACCAATCGACCGACCCGGATCCTTTCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211119854|gb|FL011674.1|FL011674
EST:     ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|148930111|gb|EC872433.2|EC872433
EST:     CCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: CCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211120638|gb|FL011688.1|FL011688
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACG                         CTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211120634|gb|FL011684.1|FL011684
EST:     ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|148972928|gb|EE023946.2|EE023946
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211119858|gb|FL011678.1|FL011678
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACG                         CTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|71325798|gb|DR799578.1|DR799578
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|148994797|gb|EE034244.2|EE034244
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACG                         CTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211037318|gb|FK949902.1|FK949902
EST:     CTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACG                         CTGCAGTCGTCGTAGCAGATCTTTATCTCAAACCCTACCGACCAACAGCTG
genomic: CTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTT-ATCTCAAACCCTACCGACCAACAGCTG
EST: gi|211120633|gb|FL011683.1|FL011683
EST:     ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211119860|gb|FL011680.1|FL011680
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|148960655|gb|EE011285.2|EE011285
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211119853|gb|FL011673.1|FL011673
EST:     ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211120637|gb|FL011687.1|FL011687
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|148999898|gb|EE036942.2|EE036942
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|87156736|gb|DY401525.1|DY401525
EST:     AGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACG                         CTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|149111478|gb|EE294982.2|EE294982
EST:     CGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: CGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|148960706|gb|EE011347.2|EE011347
EST:     ATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: ATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211120632|gb|FL011682.1|FL011682
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|149110373|gb|EE190383.2|EE190383
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACG                         CTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|110220049|gb|EC901947.1|EC901947
EST:     AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211120635|gb|FL011685.1|FL011685
EST:     AATATAGATCTACCAAKCGACCGACCCGGATCCTTCCCTTCCGTCTGACG                         CTGCAGTCGTCGTAGCAGATCTTATCTSAAACCCTACCGACCAACAGCTGC
genomic: AATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211119859|gb|FL011679.1|FL011679
EST:     ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
EST: gi|211119857|gb|FL011677.1|FL011677
EST:     ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGA--                         ---C-GTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC
genomic: ACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGC

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: 44 (upstream exon), 49 (downstream exon)
Score: 136

CGTCGGGCTTCTCCTCTTTCTTGCACTTTCAGTCGAGTCCAGACCTGCGGAATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGCTTGCTCGGGACGGGAACCGGAGTTGGATTGCGATGGCGCTGCAGTACGT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 105

CGTCGGGCTTCTCCTCTTTCTTGCACTTTCAGTCGAGTCCAGACCTGCGGAATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGCTTGCTCGGGACGGGAACCGGAGTTGGATTGCGATGGCGCTGCAGTACGT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 53

CGTCGGGCTTCTCCTCTTTCTTGCACTTTCAGTCGAGTCCAGACCTGCGGAATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGCTTGCTCGGGACGGGAACCGGAGTTGGATTGCGATGGCGCTGCAGTACGT


Block sizes: 43 (upstream exon), 48 (downstream exon)
Score: 61

CGTCGGGCTTCTCCTCTTTCTTGCACTTTCAGTCGAGTCCAGACCTGCGGAATATAGATCTACCAATCGACCGACCCGGATCCTTCCCTTCCGTCTGACGgcaagtatca ... tccctcgcagCTGCAGTCGTCGTAGCAGATCTTATCTCAAACCCTACCGACCAACAGCTGCTTGCTCGGGACGGGAACCGGAGTTGGATTGCGATGGCGCTGCAGTACGT