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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTGAATTTGTGCACGAATTGAATCGCAGTGGAAATCAGTTCCACTCATGTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttcctagtttttttgtaacctagttaataattccggagcataatcatagtcctttttcagggaggtggatttaacttctattttatgttttgttatgcag

Basic information

species Zea mays
transcript GRMZM2G022383_T02
intron # 14
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|32929216|gb|CF034028.1|CF034028
EST:     GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
EST: gi|32943548|gb|CF048367.1|CF048367
EST:     GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
EST: gi|67020143|gb|CO448892.1|CO448892
EST:     TGTTNTCCACCCAACTTATCAATCCTTGTTAGTGATTGGGTTGT-ACGAG                         TCCTTGGAACNTTTGG-ACATAAGGGAGAANAACACCATGACCTTTCAACA
genomic: TGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGG-TTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAAC-TTTGGGACATAAGGGAGAAGAACACCATGACCTT-CAACA
EST: gi|5713797|gb|AI943789.1|AI943789
EST:     GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
EST: gi|211426280|gb|FL284121.1|FL284121
EST:     GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
EST: gi|76281467|gb|DV021035.1|DV021035
EST:     GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
EST: gi|78024356|gb|DV492743.1|DV492743
EST:     GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
EST: gi|211426278|gb|FL284119.1|FL284119
EST:     GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
EST: gi|32928808|gb|CF033620.1|CF033620
EST:     GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
EST: gi|32943545|gb|CF048364.1|CF048364
EST:     GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
EST: gi|7216428|gb|AW562550.1|AW562550
EST:     AACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: AACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
EST: gi|4967236|gb|AI691909.1|AI691909
EST:     GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAG                         TCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT
genomic: GTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAAT

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: 48 (upstream exon), 49 (downstream exon)
Score: 125

TGGTGAATTTGTGCACGAATTGAATCGCAGTGGAAATCAGTTCCACTCATGTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAATGCGCATGACGGTTTGGTTGCAGCCCTGGCAGCATCCAGTGCAACAGGGA


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

TGGTGAATTTGTGCACGAATTGAATCGCAGTGGAAATCAGTTCCACTCATGTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAATGCGCATGACGGTTTGGTTGCAGCCCTGGCAGCATCCAGTGCAACAGGGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 69

TGGTGAATTTGTGCACGAATTGAATCGCAGTGGAAATCAGTTCCACTCATGTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAATGCGCATGACGGTTTGGTTGCAGCCCTGGCAGCATCCAGTGCAACAGGGA


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 80

TGGTGAATTTGTGCACGAATTGAATCGCAGTGGAAATCAGTTCCACTCATGTGTTTTCCACCCAACTTATCAATCCTTGTTAGTGATTGGTTGTTACGAGgtaagttttc ... tgttatgcagTCCTTGGAACTTTGGGACATAAGGGAGAAGAACACCATGACCTTCAACAATGCGCATGACGGTTTGGTTGCAGCCCTGGCAGCATCCAGTGCAACAGGGA