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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGATATGGAAATCGATCAACTCCTGAAGAACAAAGCCAAATCTCCAGGTTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagttatgttctagtgacagaatttcattatgccctcaaaatcattctgtggtgaatgggatcagtaatggacacgcttcactctctaatatatag

Basic information

species Zea mays
transcript GRMZM2G124883_T01
intron # 10
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|76018055|gb|DT945225.1|DT945225
EST:     TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAG                         GGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
genomic: TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
EST: gi|211077350|gb|FK960594.1|FK960594
EST:     TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGACGACTATCAG                         GGACTGGATCAAGTGAAGCC
genomic: TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCC
EST: gi|211256989|gb|FL181069.1|FL181069
EST:     TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAG                         GGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
genomic: TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
EST: gi|76281862|gb|DV021430.1|DV021430
EST:     ATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCGG                         GGACTGGATCAAGGGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
genomic: ATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
EST: gi|211077349|gb|FK960593.1|FK960593
EST:     TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAG                         GGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
genomic: TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
EST: gi|211077347|gb|FK960591.1|FK960591
EST:     TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGACGACTATCAG                         GGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
genomic: TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
EST: gi|32835742|gb|CD975420.1|CD975420
EST:     GATCCGGCGACTATCAG                         GGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
genomic: GATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
EST: gi|37384588|gb|CF629383.1|CF629383
EST:     TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAG                         GGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT
genomic: TTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCT

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: 264

AAAGATATGGAAATCGATCAACTCCTGAAGAACAAAGCCAAATCTCCAGGTTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCTGCTCAGTAGCAGGAACCGAGTATTCAGTAGGTGGTGCTTCAGAGGCGAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 46

AAAGATATGGAAATCGATCAACTCCTGAAGAACAAAGCCAAATCTCCAGGTTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCTGCTCAGTAGCAGGAACCGAGTATTCAGTAGGTGGTGCTTCAGAGGCGAC


Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 20

AAAGATATGGAAATCGATCAACTCCTGAAGAACAAAGCCAAATCTCCAGGTTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCTGCTCAGTAGCAGGAACCGAGTATTCAGTAGGTGGTGCTTCAGAGGCGAC


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

AAAGATATGGAAATCGATCAACTCCTGAAGAACAAAGCCAAATCTCCAGGTTCATCAATAGATAGAAATGACAGTCGCCAACAGATCCGGCGACTATCAGgtaagggagt ... taatatatagGGACTGGATCAAGTGAAGCCGAATGTGAAGATAACATGTCTGATGATGGCTGCTCAGTAGCAGGAACCGAGTATTCAGTAGGTGGTGCTTCAGAGGCGAC