Sequence
atgc intronic sequence ATGC exonic sequencegtaatttttaaatatctaacatttcatgcttactttttttcctaagcacactgctttaagatttatattcataactaaaggtttaactgtggcaagtaatttgcttttgcttattttctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGTAGTTAGGTCCAATTGCATTGATTGCCTGGACCGTACAAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G047894_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 13
----------gtaatttttaaatatctaacatttcatgctta-ctttttttcctaagcacactgctttaagatttatattcataactaaaggtttaactgtggcaagtaatttgcttttgcttattttctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGTAGTTAGGTCCAATTGCATTGATTGCCTGGACCGTACAAATG--------
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gtaatttttaaacacctttaaatagccaacattt-acgcttatctcttgttcctgatgagactactttaagatttatttcaactactgaaggtttaactatggcaagtaatttgctcttgattaatttcggggccagctgagcagATATTTTCTTATCAACTCCAAAGGAGAGATATTCCTGGAGCAAAGCGGCATAGTTAGATCCAATTGCATAGATTGTCTGGACCGTACAAATGTAACTCAGMapped 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|5296286|gb|AI783056.1|AI783056EST: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG CTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... tctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
EST:
gi|31348859|gb|CD433216.1|CD433216EST: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG CTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... tctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
EST:
gi|40335862|gb|CK369932.1|CK369932EST: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG CTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... tctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
EST:
gi|71311517|gb|DR792122.1|DR792122EST: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG ---A-----TATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... tctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
EST:
gi|60343346|gb|DN210319.1|DN210319EST: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG CTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... tctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
EST:
gi|5846902|gb|AI999985.1|AI999985EST: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG CTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... tctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAA
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:
48 (upstream exon),
34 (downstream exon)
Score:
39GTATATACATTTTGATTTCCATCATGTTTGTCGTGGAGGTAACTTTGACAATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... tctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGTAGTTAGGTCCAATTGCATTGATTGCCTGGACCGTACAAATG
Block sizes:
49 (upstream exon),
34 (downstream exon)
Score:
61GTATATACATTTTGATTTCCATCATGTTTGTCGTGGAGGTAACTTTGACAATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... tctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGTAGTTAGGTCCAATTGCATTGATTGCCTGGACCGTACAAATG
Block sizes:
47 (upstream exon),
34 (downstream exon)
Score:
66GTATATACATTTTGATTTCCATCATGTTTGTCGTGGAGGTAACTTTGACAATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... tctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGTAGTTAGGTCCAATTGCATTGATTGCCTGGACCGTACAAATG
Block sizes:
47 (upstream exon),
34 (downstream exon)
Score:
87GTATATACATTTTGATTTCCATCATGTTTGTCGTGGAGGTAACTTTGACAATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... tctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGTAGTTAGGTCCAATTGCATTGATTGCCTGGACCGTACAAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taactaaaggtttaactgtggcaagtaatttgcttttgcttattttctgggccagCTGAGCAGATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGTAGTTAGGTCCAATTGCATTGATTGCCTGGACCGTACAAATG
cttttgcttattttct CT-rich tract
aagtaattt TA-rich tract