Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcatttgtagtttgcagtctgagtttttttttcctgcttcattcctgggatttgagaaataataattaacatcacaataattgtgaacttgcttttaagaacaatcccatttctatatagattaatcatcagccctgctttgcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G819212_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g15970.5 (Oryza sativa), 3'ss of exon 2
gtaagttcatttgtagtttgcagtctgagtttttttttcctgcttcattcctgggatttgagaaataataattaacatcacaataattgtgaacttgc-ttttaagaacaatcccatttctatatagattaatcatcagccctgctttgcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
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-----------------------------------------tcttaaacccttgtatttatgtg-cagcaatcattggcc------ttgcgcccttgccttttgatatcaa--ctatatctctatagctt--------gctctcctttatgtgaacagGAGAAATATCACCCTTACTACCCTCAAGCTGCCGTTATGTGCCAACTTGCAGTGAGTACTCTATGCAAGCATACAAAAAATACGGTGTTGCAAAGGGTAC
upper sequence: GRMZM5G819212_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g15970.4 (Oryza sativa), 3'ss of exon 3
gtaagttcatttgtagtttgcagtctgagtttttttttcctgcttcattcctgggatttgagaaataataattaacatcacaataattgtgaacttgc-ttttaagaacaatcccatttctatatagattaatcatcagccctgctttgcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
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------------------------gtgagttcattcttgctgttttcatcttaaacccttgtatttatgtgcagcaatcattggccttgcgcccttgccttttgatatcaa--ctatatctctatagctt--------gctctcctttatgtgaacagGAGAAATATCACCCTTACTACCCTCAAGCTGCCGTTATGTGCCAACTTGCAGTGAGTACTCTATGCAAGCATACAAAAAATACGGTGTTGCAAAGGGTAC
upper sequence: GRMZM5G819212_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g47930.1 (Oryza sativa), 3'ss of exon 3
gtaagttcatttgtagtttgcagtctgagtttttttttcctgcttcattcctgggatt-tgagaaataataattaacatcacaataattgtgaacttgc-ttttaagaacaatcccatttctatatagattaatcatcagccctgctttgcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
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------------------------gtaagttcattcttactgttttcatcttgtatttatgtgcagcaatcattggcct---------tgcgcccttgccttttgatatcaa--ctatatctctatagctt--------gctctcctttatgtgaacagGAGAAATATCGCCCTTACTACCCTCAAGCTGCCGTTATGTGCCAACTTGCAGCCAGTACTCTATGCAAGCATACAAAAAATACGGCGTTGCAAAGGGTACMapped 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|211286457|gb|FL309059.1|FL309059EST: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAAATTTACAAAC GAGAAATATCACCTTTACTACCTT
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTT
EST:
gi|211290851|gb|FL314522.1|FL314522EST: AAAGATTTTRGAGTCAATATGGCACTATCCATGCTAAAATTCTYACAAAC GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGC
genomic: AAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTT-ACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGC
EST:
gi|33467473|gb|CF244522.1|CF244522EST: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST:
gi|211269504|gb|FL311290.1|FL311290EST: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST:
gi|5296116|gb|AI782991.1|AI782991EST: GCTAAAATTTTACAAAC GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: GCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST:
gi|211336107|gb|FL367026.1|FL367026EST: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
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:
47 (upstream exon),
49 (downstream exon)
Score:
93AGGAAGTCAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
115AGGAAGTCAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
42AGGAAGTCAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
Block sizes:
48 (upstream exon),
46 (downstream exon)
Score:
64AGGAAGTCAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaacaatcccatttctatatagattaatcatcagccctgctttgcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
gattaat putative branch site (score: 64)
atttctatatagatta TA-rich tract