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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGGCGAAGCGCGTAGCATTCCTTTTCCTCCTCCCCTTTGCGGCTTCTCGCAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgctggatcccccctatcaccgcactcgtccactcctgtccggattttccctcttctttttcgtgctcttggcgcccctctcggcgatttgcttgactctgatgggtttggggtttggtgcgtgcag

Basic information

species Zea mays
transcript GRMZM2G101571_T02
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|60345631|gb|DN212604.1|DN212604
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|37622088|gb|CF675141.1|CF675141
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|87154400|gb|DY399189.1|DY399189
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|92088107|gb|EB484338.1|EB484338
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211216835|gb|FL144756.1|FL144756
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|78021287|gb|DV489674.1|DV489674
EST:     TCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: TCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304813|gb|FL144776.1|FL144776
EST:     CAGCGCTGCGAATCCGAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|87155055|gb|DY399844.1|DY399844
EST:     GCACCGATCGGACGGGAATCGATCGAGAG                         GCAGGGGGCAGCATTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: GCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|32868635|gb|CF008317.1|CF008317
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|74240317|gb|DT648231.1|DT648231
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211216837|gb|FL144758.1|FL144758
EST:     CAGCGCTGCGAATCCGAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211216833|gb|FL144754.1|FL144754
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211216838|gb|FL144759.1|FL144759
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGGC
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGGC
EST: gi|28910030|gb|CB331222.1|CB331222
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211306828|gb|FL144778.1|FL144778
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|93281723|gb|EB673987.1|EB673987
EST:     CCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304811|gb|FL144774.1|FL144774
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304800|gb|FL144763.1|FL144763
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304807|gb|FL144770.1|FL144770
EST:     CAGCGCTGCGAATCCGAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304806|gb|FL144769.1|FL144769
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|26455131|gb|CA826714.1|CA826714
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304808|gb|FL144771.1|FL144771
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|60348036|gb|DN215009.1|DN215009
EST:     AATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: AATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|22546781|gb|BU099092.1|BU099092
EST:     CAG-GCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|60343725|gb|DN210698.1|DN210698
EST:     CGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304809|gb|FL144772.1|FL144772
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211216840|gb|FL144761.1|FL144761
EST:     CAGCGCTGCGAATCCGAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211306827|gb|FL144777.1|FL144777
EST:     CAGCGCTGCGAATCCGAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304812|gb|FL144775.1|FL144775
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304803|gb|FL144766.1|FL144766
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAKAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211216832|gb|FL144753.1|FL144753
EST:     CAGCGCTGCGAATCCGAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211216839|gb|FL144760.1|FL144760
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211216836|gb|FL144757.1|FL144757
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304801|gb|FL144764.1|FL144764
EST:     CAGCGCTGCGAATCCGAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|30160483|gb|CB924212.1|CB924212
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
EST: gi|211304805|gb|FL144768.1|FL144768
EST:     CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAG                         GCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG
genomic: CAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG

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), 47 (downstream exon)
Score: 193

TCGGCGAAGCGCGTAGCATTCCTTTTCCTCCTCCCCTTTGCGGCTTCTCGCAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 426

TCGGCGAAGCGCGTAGCATTCCTTTTCCTCCTCCCCTTTGCGGCTTCTCGCAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 414

TCGGCGAAGCGCGTAGCATTCCTTTTCCTCCTCCCCTTTGCGGCTTCTCGCAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 383

TCGGCGAAGCGCGTAGCATTCCTTTTCCTCCTCCCCTTTGCGGCTTCTCGCAGCGCTGCGAATCCCAATCCGCACCGATCCGACGCGAATCGATCGAGAGgtgagctcgc ... gtgcgtgcagGCAGGGGGCAGCACTAATCGAATCGAGACTAGCGCCATGAACCCGAGAGG