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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGTTATGACCAGACTTTGAAAACATCCTGAGAAGCTGAGTGACGTGTCTGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagtttttaaaccattcagggcatccaattttctttaaacaatttttatacttcgtatatcacatttatgtggtcgtcttgaaaatgtttggacacagtaatcttaattacaaaacttctgaattttgtatgaag

Basic information

species Zea mays
transcript GRMZM2G026869_T03
intron # 5
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|60355726|gb|DN222699.1|DN222699
EST:     TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|6194738|gb|AW146842.1|AW146842
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTAC
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTAC
EST: gi|71764970|gb|DR962907.1|DR962907
EST:     TGCCAATCAAGTCTTGGATTATTTGGTGCANNNNNNNAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|78023024|gb|DV491411.1|DV491411
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCC-ACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|6095632|gb|AW120299.1|AW120299
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCC-ACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|71444034|gb|DR825084.1|DR825084
EST:     TGCCAATCAAGTCTTGGATTATCTGGTGCANNNNNNNAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|5739771|gb|AI947347.1|AI947347
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCCC-CCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|78118115|gb|DV536502.1|DV536502
EST:     TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|5847510|gb|AW000589.1|AW000589
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCC-ACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|211117946|gb|FL431807.1|FL431807
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCC-ACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|5819346|gb|AI987552.1|AI987552
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCC-ACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA

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: 39 (upstream exon), 46 (downstream exon)
Score: 11

AAAGTTATGACCAGACTTTGAAAACATCCTGAGAAGCTGAGTGACGTGTCTGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGACGAGGATCCAAGCCCAATCATTGAGCAGAGCTGTTAACGATTACGCATA


Block sizes: 36 (upstream exon), 30 (downstream exon)
Score: 15

AAAGTTATGACCAGACTTTGAAAACATCCTGAGAAGCTGAGTGACGTGTCTGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGACGAGGATCCAAGCCCAATCATTGAGCAGAGCTGTTAACGATTACGCATA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 15

AAAGTTATGACCAGACTTTGAAAACATCCTGAGAAGCTGAGTGACGTGTCTGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGACGAGGATCCAAGCCCAATCATTGAGCAGAGCTGTTAACGATTACGCATA


Block sizes: 47 (upstream exon), 39 (downstream exon)
Score: 8

AAAGTTATGACCAGACTTTGAAAACATCCTGAGAAGCTGAGTGACGTGTCTGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGACGAGGATCCAAGCCCAATCATTGAGCAGAGCTGTTAACGATTACGCATA