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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCCTGCCCTAAACTCTAAACCCAAAGGTTATTCGTAACAAGTGTTTTAAGATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTATttttgttgggttttttaaattggtgcccttggttttggtggtgtgctcacctatacccttagtcgtgttttttgctcagttatgcccttctgttctatagcactggaagggcacagctgagcaaaaaacacgactaagggtatatgtgagcacaccaccagaactaagggcaccaatttaaaa

Basic information

species Zea mays
transcript GRMZM5G863656_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|108954196|gb|EC365049.1|EC365049
EST:     GATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTAT                         TTTT-GTTTGGTTATCGATAATCCAGTTTC
genomic: GATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTATttttgttggg ... caatttaaaaTTTTTGTTTGGTTATCGATAATCCAGTTTC
EST: gi|37393022|gb|CF633767.1|CF633767
EST:     GATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTAT                         TTTT-GTTTGGTTATCGATAATCCAGTTTCTCA
genomic: GATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTATttttgttggg ... caatttaaaaTTTTTGTTTGGTTATCGATAATCCAGTTTCTCA
EST: gi|71313931|gb|DR793570.1|DR793570
EST:     GATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTAT                         TTTT-GTTGGGTT
genomic: GATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTATttttgttggg ... caatttaaaaTTTTTGTTTGGTT
EST: gi|166601376|gb|EG064110.1|EG064110
EST:     GATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGAT-AT                         TTTT-GTTTGGTTATCGATAATCCAGTTTCTC
genomic: GATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTATttttgttggg ... caatttaaaaTTTTTGTTTGGTTATCGATAATCCAGTTTCTC
EST: gi|166556658|gb|EG317780.1|EG317780
EST:     GATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTAT                         TTTTTGTTTGGTTATCGATAATCCAGTTTCTC
genomic: GATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTATttttgttggg ... caatttaaaaTTTTTGTTTGGTTATCGATAATCCAGTTTCTC

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), 49 (downstream exon)
Score: 1306

TCCCTGCCCTAAACTCTAAACCCAAAGGTTATTCGTAACAAGTGTTTTAAGATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTATttttgttggg ... caatttaaaaTTTTTGTTTGGTTATCGATAATCCAGTTTCTCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1114

TCCCTGCCCTAAACTCTAAACCCAAAGGTTATTCGTAACAAGTGTTTTAAGATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTATttttgttggg ... caatttaaaaTTTTTGTTTGGTTATCGATAATCCAGTTTCTCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1156

TCCCTGCCCTAAACTCTAAACCCAAAGGTTATTCGTAACAAGTGTTTTAAGATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTATttttgttggg ... caatttaaaaTTTTTGTTTGGTTATCGATAATCCAGTTTCTCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 579

TCCCTGCCCTAAACTCTAAACCCAAAGGTTATTCGTAACAAGTGTTTTAAGATTATTTTTGTTTATGTTTGGGTTCGAGTACTGCTGTGTGCATGATTATttttgttggg ... caatttaaaaTTTTTGTTTGGTTATCGATAATCCAGTTTCTCA