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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgctgaacatatatgtacataagtggcagtaatccacactctacacagtctttgctttctctagcaagaatcaagcatgcaatctgacatctatcttgtaaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGGCGAGAACATGATTGGGTTTGCCAAATCTGCATGAGGACTGGAGTTCTGC

Basic information

species Zea mays
transcript AC155434.2_FGT003
intron # 5
splice site 3'
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|113704232|gb|EE681736.1|EE681736
EST:     ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTG                         GATACTTGGTGATGTTTTTATGGGTGCCTACCACACTGTTTTTGACTTCGG
genomic: ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGG
EST: gi|211357458|gb|FL472116.1|FL472116
EST:     ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTG                         GATACTTGGTGATGTTTTTATGGGTGCCTACCACACTGTTTTTGACTTCGG
genomic: ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGG
EST: gi|211047514|gb|FL475118.1|FL475118
EST:     ATCAGTGGGTTTATGGCATTTGACGTACAGCCTCCTCGTGGTCC-CTCTG                         GATACTTGGTGATGTTTTTATGGGTGTCTACCACACTGTTTTTGACTTCGG
genomic: ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGG
EST: gi|32936214|gb|CF041026.1|CF041026
EST:     GGTCCTCTCTG                         GATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGG
genomic: GGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGG
EST: gi|24768468|gb|CA403597.1|CA403597
EST:     ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTG                         GATACTTGGTGATGTTTTTATGAGTGTCTACCCCACTGTTTTTGACTTCGG
genomic: ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGG
EST: gi|211026213|gb|FL452157.1|FL452157
EST:     ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTG                         GATACTTGGTGATGTTTTTATGGGTGCCTACCACACTGTTTTTGACTTCGG
genomic: ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGG
EST: gi|16377663|gb|BI992044.1|BI992044
EST:     ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTG                         GATACTTGGTGATGTTTTTATGGGTGCCTACCACACTGTTTTTGACTTCGG
genomic: ATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGG

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), 22 (downstream exon)
Score: 170

TACATAGTGAAGCTGGAGCAAGCAGGACAAACTATCTGCATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGGCGAGAACATGATTGGGTTTGCCAAATCTGCATGAGGACTGGAGTTCTGC


Block sizes: 49 (upstream exon), 22 (downstream exon)
Score: 152

TACATAGTGAAGCTGGAGCAAGCAGGACAAACTATCTGCATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGGCGAGAACATGATTGGGTTTGCCAAATCTGCATGAGGACTGGAGTTCTGC


Block sizes: 49 (upstream exon), 22 (downstream exon)
Score: 293

TACATAGTGAAGCTGGAGCAAGCAGGACAAACTATCTGCATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGGCGAGAACATGATTGGGTTTGCCAAATCTGCATGAGGACTGGAGTTCTGC


Block sizes: 48 (upstream exon), 22 (downstream exon)
Score: 217

TACATAGTGAAGCTGGAGCAAGCAGGACAAACTATCTGCATCAGTGGGTTTATGGCATTTGACGTACCGCCTCCTCGTGGTCCTCTCTGgtacgctgaa ... aaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGGCGAGAACATGATTGGGTTTGCCAAATCTGCATGAGGACTGGAGTTCTGC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttctctagcaagaatcaagcatgcaatctgacatctatcttgtaaacattcagGATACTTGGTGATGTTTTTATGAGTGTCTACCACACTGTTTTTGACTTCGGCGAGAACATGATTGGGTTTGCCAAATCTGCATGAGGACTGGAGTTCTGC
                           atctgac  putative branch site (score: 217)
                                            taaacatt  TA-rich tract