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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGTGCTGCGAGTACACGCTGGACGGCTCCGTCGACATGAAGGGCCGGCCGGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattctgcttaccacctttcctgccctagttttttctatgaaaaataaaataaaacagcgagacctgcagttaactaatttcctaccacacaaaaa...

Basic information

species Zea mays
transcript GRMZM2G044851_T01
intron # 2
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|76927974|gb|DV171443.1|DV171443
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|148987145|gb|EE030973.2|EE030973
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|211540626|gb|FL330694.1|FL330694
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|50328864|gb|CO523990.1|CO523990
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|211020704|gb|FL318028.1|FL318028
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|86474663|gb|DY241033.1|DY241033
EST:     GGCGGTCAGGGGGAAATCAGGAGGGTGGTTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGTTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|71417415|gb|DR804042.1|DR804042
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|74245993|gb|DT653907.1|DT653907
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|74237215|gb|DT645129.1|DT645129
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|71314199|gb|DR793714.1|DR793714
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|71424538|gb|DR806351.1|DR806351
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|211010835|gb|FL363372.1|FL363372
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
EST: gi|74240219|gb|DT648133.1|DT648133
EST:     GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCG                         TGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG
genomic: GGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGG

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 3 RNA-Seq libraries.


Block sizes: 47 (upstream exon), 38 (downstream exon)
Score: 6

AAGTGCTGCGAGTACACGCTGGACGGCTCCGTCGACATGAAGGGCCGGCCGGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGGTGCTGTTCCTGACCCGGGTGCTGGGGCAGAGCAATGGCGACGCCGCCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 107

AAGTGCTGCGAGTACACGCTGGACGGCTCCGTCGACATGAAGGGCCGGCCGGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGGTGCTGTTCCTGACCCGGGTGCTGGGGCAGAGCAATGGCGACGCCGCCAA


Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 9

AAGTGCTGCGAGTACACGCTGGACGGCTCCGTCGACATGAAGGGCCGGCCGGCGGTCAAGGGGAAATCAGGAGGGTGGCTTGCCGGTGCTCTAATCCTCGgtattattct ... ggtgttgcagTGAACCAGGGCCTGGCGACGCTGGCTTTCTTCGGCGTGAACGTGAACCTGGTGCTGTTCCTGACCCGGGTGCTGGGGCAGAGCAATGGCGACGCCGCCAA