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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAACTTCCTCTCACTCCAACAAAAAACAAACTGATAACAACAGCTGCCGAATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGCgtaagttaaatcatacttatcaattaccttttcattcttaagctttcatacagtgacatatgtttcaatcatcctcag

Basic information

species Zea mays
transcript GRMZM2G174114_T03
intron # 11
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|60350086|gb|DN217059.1|DN217059
EST:     AATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGC                         ATGCCCCAAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAG
genomic: AATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGCgtaagttaaa ... tcatcctcagATGCCCCAAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAG
EST: gi|37389283|gb|CF631860.1|CF631860
EST:     AATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGC                         ATGCCCCAAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAG
genomic: AATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGCgtaagttaaa ... tcatcctcagATGCCCCAAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAG
EST: gi|211208133|gb|FK984613.1|FK984613
EST:     AATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGC                         ATGCCCCGAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAGA
genomic: AATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGCgtaagttaaa ... tcatcctcagATGCCCCAAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAGA
EST: gi|83278170|gb|DV942178.1|DV942178
EST:     AATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGC                         ATGCCCCAAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAG
genomic: AATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGCgtaagttaaa ... tcatcctcagATGCCCCAAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAG

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: 29 (upstream exon), 30 (downstream exon)
Score: 4

GCAACTTCCTCTCACTCCAACAAAAAACAAACTGATAACAACAGCTGCCGAATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGCgtaagttaaa ... tcatcctcagATGCCCCAAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 18

GCAACTTCCTCTCACTCCAACAAAAAACAAACTGATAACAACAGCTGCCGAATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGCgtaagttaaa ... tcatcctcagATGCCCCAAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAG


Block sizes: 23 (upstream exon), 27 (downstream exon)
Score: 1

GCAACTTCCTCTCACTCCAACAAAAAACAAACTGATAACAACAGCTGCCGAATCTCCTTCTACACCCATGTCTAGACTTTCCACAGCAGACTCACCAAGCgtaagttaaa ... tcatcctcagATGCCCCAAAAGCTGACATATTCTCCAGCAAAGAATAAGCCTTAG