Sequence
atgc intronic sequence ATGC exonic sequencegtacgctacttctttgcacacctgatataaagcttgtataatgcctcattgcctcctagttttgacatcccaacgaagggaactatctgcacaatcaactgtctgaagctacagctcaggaacgtactgtaagaaatatctgaatgtatagttcaaactttgtgcgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCCAACTGGCTGACATCCTTCGCCATAACAATGACGACGAACTTGATGCTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G160504_T02 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os05g49270.1 (Oryza sativa), 3'ss of exon 15
gtacgctacttctttgcacacctgatataaagcttgtataatgcctcattgcctcctagttttgacatcccaacgaagggaactatctgcacaatcaactgtctgaagctacagctcaggaacgtactgtaagaaatatctgaatgtatagttcaaactttgtgcgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCCAACTGGCTGACATCCTTCGCCATAACAATGACGACGAACTTGATGCTCA
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--------------------------gtatagcttc----atggctcataatcatacggccttggaatttagctgaagag---cattcacatggcca--tgatt-----------tttggagcat-ttgtcagatg-gtctgaagactcacttccaactt-gtatatttt-cagATCCTCCCGGTTAGTATCAAGAGTCTCGCAGGAAGCTTTGCGACGCTCGCCAACTGGCTTACATCCTTTGGAATAACAATGACAGCAAACTTGATGCTTA
upper sequence: GRMZM2G160504_T02 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os05g49260.1 (Oryza sativa), 3'ss of exon 15
gtacgctacttctttgcacacctgatataaagcttgtataatgcctcattgcctc-ctagttttgacatcccaacgaagggaactatctgcacaatcaactgtctgaagcta-cagctcaggaacgtactgtaagaaatatctgaatgtatagttcaaactttgtgcgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCCAACTGGCTGACATCCTTCGCCATAACAATGACGACGAACTTGATGCTCA
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-----------------------------------gtataatgctttgccccatagctcacaatgatgttagtatttttagagc-attgacacatccaccattttgttgcaagtatctcaggcatcagct-taagtaatctaaagattt-cagttaaatctttgtttgttctt-agATCCTCCCAGTTAGCATCAAGAGTCTTGGGGGAAGCTTTGCGACACTTGCCAACATGCTTACATCCTGGGCAATAACAATGACAGCAAATTTGTTACTCAMapped 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|19769428|gb|BQ034149.1|BQ034149EST: TTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAG ATCCTCCCTGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCC
genomic: TTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAGgtacgctact ... cgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCC
EST:
gi|211356742|gb|FL440509.1|FL440509EST: TTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAG ATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCC
genomic: TTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAGgtacgctact ... cgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCC
EST:
gi|78120836|gb|DV539220.1|DV539220EST: TTACCTTCTCGTTTGGTAGGGGTGCCATTCCATGGCTCATGATGTCTGAG ATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCC
genomic: TTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAGgtacgctact ... cgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCC
EST:
gi|19769435|gb|BQ034156.1|BQ034156EST: TTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAG ATCCTCCCTGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCC
genomic: TTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAGgtacgctact ... cgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCC
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:
46 (upstream exon),
45 (downstream exon)
Score:
11TCTTTTGTCATTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAGgtacgctact ... cgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCCAACTGGCTGACATCCTTCGCCATAACAATGACGACGAACTTGATGCTCA
Block sizes:
48 (upstream exon),
48 (downstream exon)
Score:
90TCTTTTGTCATTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAGgtacgctact ... cgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCCAACTGGCTGACATCCTTCGCCATAACAATGACGACGAACTTGATGCTCA
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
131TCTTTTGTCATTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAGgtacgctact ... cgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCCAACTGGCTGACATCCTTCGCCATAACAATGACGACGAACTTGATGCTCA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
74TCTTTTGTCATTACCTTCTCGTTTGGTATGGGTGCCATTCCATGGCTCATGATGTCTGAGgtacgctact ... cgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCCAACTGGCTGACATCCTTCGCCATAACAATGACGACGAACTTGATGCTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaacgtactgtaagaaatatctgaatgtatagttcaaactttgtgcgtttttcagATCCTCCCGGTTAGCATCAAGAGCCTTGGCGGAAGCATCGCAACACTGGCCAACTGGCTGACATCCTTCGCCATAACAATGACGACGAACTTGATGCTCA
cgtttttc CT-rich tract
taagaaatat TA-rich tract