Sequence
atgc intronic sequence ATGC exonic sequencegtaatatattcctgcttagtaaggaggtagtacattttaatatgtagcagatacaattaactaaatactgaaagtttgagctattgatttgtttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATATTTCGAACAAAATTTGTTGATGGTGTGTCCACCGTGACACGAACAGTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G006452_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os01g67740.1 (Oryza sativa), 3'ss of exon 19
-----------------------------------------gtaatatattcctgcttagtaaggaggtagtacattttaatatgtagcagatacaattaacta--aatactgaaagtttgagctattgat--ttgtttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATATTTCGAACAAAATTTGTTGATGGTGTGTCCACCGTGACACGAACAGTGC
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gtatgtgcccagcttgctccaaagatgcaatcatgtgacagttcacaattcacatccttgcacacaatttacaaatgcatatactaggcaaatttatttcatcattggagttcagggttctgaaaattggtgctactacattttcagTTCATAGTTGTCTCACTAAAAGAGGGCATGTTCAACAACGCAAATGTGATATTCCGAACGAAATTTGTTGATGGGGTGTCCACTGTGACACGAACGGTCCMapped 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|60343263|gb|DN210236.1|DN210236EST: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
EST:
gi|211376362|gb|FL264047.1|FL264047EST: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGAT
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGAT
EST:
gi|22473074|gb|BU037554.1|BU037554EST: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
EST:
gi|60342521|gb|DN209494.1|DN209494EST: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
EST:
gi|5525454|gb|AI861347.1|AI861347EST: TTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
genomic: TTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
EST:
gi|6031321|gb|AW076178.1|AW076178EST: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGC
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGC
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),
49 (downstream exon)
Score:
175GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATATTTCGAACAAAATTTGTTGATGGTGTGTCCACCGTGACACGAACAGTGC
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
14GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATATTTCGAACAAAATTTGTTGATGGTGTGTCCACCGTGACACGAACAGTGC
Block sizes:
46 (upstream exon),
49 (downstream exon)
Score:
47GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATATTTCGAACAAAATTTGTTGATGGTGTGTCCACCGTGACACGAACAGTGC
Block sizes:
47 (upstream exon),
48 (downstream exon)
Score:
19GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATATTTCGAACAAAATTTGTTGATGGTGTGTCCACCGTGACACGAACAGTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagatacaattaactaaatactgaaagtttgagctattgatttgtttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATATTTCGAACAAAATTTGTTGATGGTGTGTCCACCGTGACACGAACAGTGC
tttgttttttt CT-rich tract
tattgatttgtttttt TA-rich tract