Sequence
atgc intronic sequence ATGC exonic sequencegtatgggcgagaacgcatgacgattaggtctccaaacccggctgaaagcacgatgttttagctgtactgattgcatggccttcttcacgcacaggcacgctagctaatttcagctttgggtccttttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAAGCGGGGCATGAGTGGCGAGCCTTTGCCGTCGCACAACCGGAGCCTCTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G052476_T03 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os03g55890.1 (Oryza sativa), 3'ss of exon 10
gtatgggcgagaacgcatgacgattaggtctccaaacccggctgaaagcacgatgttttagctgtactgattgcatggccttcttcacgcacaggcacgctagctaatttcagctttgggtccttttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAAGCGGGGCATGAGTGGCGAGCCTTTGCCGTCGCACAACCGGAGCCTCTTT---
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-----gtaaagcaaacatgattattaggtc---aaaactagttaaaagtgtaatattcacactgtactgattatatagc-------------aagcatgcta----attctatgtgttgttccttttaatgcagTGGTTACGT---ACTTTGCTTCACCCAAGGATCAAAAGCAAAGTGGGCAAAGTAGGGCATGTGTGGCAAGCCTTTGCCGTTGCACAATCAGAGCCTCTTTTACMapped 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|71430897|gb|DR811947.1|DR811947EST: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAG TGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
genomic: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
EST:
gi|160481510|gb|EY254342.1|EY254342EST: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAG TGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCA
genomic: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCA
EST:
gi|76281673|gb|DV021241.1|DV021241EST: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAG TGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
genomic: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
EST:
gi|160481374|gb|EY254288.1|EY254288EST: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAG TGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
genomic: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
EST:
gi|71761823|gb|DR959760.1|DR959760EST: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAG TGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
genomic: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
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:
34 (upstream exon),
32 (downstream exon)
Score:
9GCCGCCTGCAAAATAGCTGGACGCAGCATCAACGCGGCCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAAGCGGGGCATGAGTGGCGAGCCTTTGCCGTCGCACAACCGGAGCCTCTTT
Block sizes:
12 (upstream exon),
38 (downstream exon)
Score:
1GCCGCCTGCAAAATAGCTGGACGCAGCATCAACGCGGCCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAAGCGGGGCATGAGTGGCGAGCCTTTGCCGTCGCACAACCGGAGCCTCTTT
Block sizes:
15 (upstream exon),
37 (downstream exon)
Score:
4GCCGCCTGCAAAATAGCTGGACGCAGCATCAACGCGGCCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAAGCGGGGCATGAGTGGCGAGCCTTTGCCGTCGCACAACCGGAGCCTCTTT
Block sizes:
33 (upstream exon),
25 (downstream exon)
Score:
6GCCGCCTGCAAAATAGCTGGACGCAGCATCAACGCGGCCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAAGCGGGGCATGAGTGGCGAGCCTTTGCCGTCGCACAACCGGAGCCTCTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcttcacgcacaggcacgctagctaatttcagctttgggtccttttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAAGCGGGGCATGAGTGGCGAGCCTTTGCCGTCGCACAACCGGAGCCTCTTT
ttttaat putative branch site (score: 6)
tcctttt CT-rich tract
ttttaat TA-rich tract