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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCCGCCCCAACTTGTCAGGACTCAAGAGGCTCCCCTCCTCCCTCGCCGCGGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagtctaggcctaatgttcgttttattcgctgggattgggatctcttccccatcgcgagccctcgaatccagcctcatcttcgtctccgatctg...

Basic information

species Zea mays
transcript GRMZM2G063851_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|211505526|gb|FL228165.1|FL228165
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211507876|gb|FL228171.1|FL228171
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|149084983|gb|EE174493.2|EE174493
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211507874|gb|FL228169.1|FL228169
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211059244|gb|FL131321.1|FL131321
EST:     AACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: AACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|148932412|gb|EC876097.2|EC876097
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211507879|gb|FL228174.1|FL228174
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|67013663|gb|CO442412.1|CO442412
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|149100799|gb|EE186893.2|EE186893
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211510237|gb|FL228184.1|FL228184
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|149014218|gb|EE043773.2|EE043773
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211510240|gb|FL228187.1|FL228187
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|149105261|gb|EE290752.2|EE290752
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|93284646|gb|EB676910.1|EB676910
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|148991806|gb|EE033387.2|EE033387
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|148931316|gb|EC874179.2|EC874179
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211510249|gb|FL228196.1|FL228196
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211510239|gb|FL228186.1|FL228186
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|78087725|gb|DV516118.1|DV516118
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211510246|gb|FL228193.1|FL228193
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211507880|gb|FL228175.1|FL228175
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|148990704|gb|EE032108.2|EE032108
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211507878|gb|FL228173.1|FL228173
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|71771089|gb|DR969026.1|DR969026
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211507873|gb|FL228168.1|FL228168
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211507884|gb|FL228179.1|FL228179
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211507875|gb|FL228170.1|FL228170
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|148939431|gb|EC883987.2|EC883987
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|89758059|gb|DY687401.1|DY687401
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|149082974|gb|EE172211.2|EE172211
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211505527|gb|FL228166.1|FL228166
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
EST: gi|211510238|gb|FL228185.1|FL228185
EST:     GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTG                         GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC
genomic: GGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACC

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: 43 (upstream exon), 46 (downstream exon)
Score: 146

CCCCGCCCCAACTTGTCAGGACTCAAGAGGCTCCCCTCCTCCCTCGCCGCGGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACCGCAGTCTCGAGACTGCGATCACGCATG


Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 690

CCCCGCCCCAACTTGTCAGGACTCAAGAGGCTCCCCTCCTCCCTCGCCGCGGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACCGCAGTCTCGAGACTGCGATCACGCATG


Block sizes: 46 (upstream exon), 47 (downstream exon)
Score: 416

CCCCGCCCCAACTTGTCAGGACTCAAGAGGCTCCCCTCCTCCCTCGCCGCGGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACCGCAGTCTCGAGACTGCGATCACGCATG


Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 381

CCCCGCCCCAACTTGTCAGGACTCAAGAGGCTCCCCTCCTCCCTCGCCGCGGAACACGCGCGCCGTCGTCGCCAGCCCGGGTTCATTTCTCCGTTCCTTGgtaagcaagt ... gtctgtgcagGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACCGCAGTCTCGAGACTGCGATCACGCATG