Sequence
atgc intronic sequence ATGC exonic sequencegtctgttattattttaaattttctgtttgcaaatctgagtaattttttgtatggaaggtaactgtttggttgggaaaattggttgcatagcttttatttctgttttgttatagcaccaacctgatttgtgtctctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCAACAAATCATTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G589579_T01 (Zea mays), 3'ss of exon 18
lower sequence: LOC_Os01g16870.1 (Oryza sativa), 3'ss of exon 18
gtctgttattattttaaattttct----------gtttgcaaatctgagt-aattttttgtatg---------gaaggtaactgtttggttgggaaaattggttgcata--gcttttattt--ctgttttgttatagcaccaac------------ctgatttgtgtctctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCAACAAATCATTGAG
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gtcagttactctttgaaagcttctcgtaaatgccattaataagcttcagtgaaatacctgaatgcaggattgtaaaagcaaaacttaaattatggacaatgattactttgtgctttgacttaactggttctttgtgtaaccgtttaatttttttcacttatttggtgctttaaatatagGGATGGGGTCAGTGAGAGCCAGTTTACCCAGGTGCTGAACATTGAGCTGGATCAAATAATTGAGMapped 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|76012783|gb|DT939953.1|DT939953EST: TTCTACACCAGTTCAGGGAAGAGAAAGCCCGACCAAGTCATCATCTTCAG GGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCA
genomic: TTCTACACCAGTTCAGGGAAGAGAAAGCCCGACCAAGTCATCATCTTCAGgtctgttatt ... ctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCA
EST:
gi|71429035|gb|DR810085.1|DR810085EST: TTCTACACCAGTTCAGGGAAGAGAAAGCCCGACCAAGTCATCATCTTCAG GGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCA
genomic: TTCTACACCAGTTCAGGGAAGAGAAAGCCCGACCAAGTCATCATCTTCAGgtctgttatt ... ctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCA
EST:
gi|84980749|gb|DW531098.1|DW531098EST: TTCTACACCAGTTCAGGGAAGAGAAAGCCTGACCAAGTCATCATCTTCAG GGACGGTGTTAGTGAAAGTCAGTTTAACCAGGTGCTGAACATTGAGTTGCA
genomic: TTCTACACCAGTTCAGGGAAGAGAAAGCCCGACCAAGTCATCATCTTCAGgtctgttatt ... ctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCA
EST:
gi|61118978|gb|DN559939.1|DN559939EST: TTCTACACCAGTTCAGGGAAGAGAAAGCCTGACCAAGTCATCATCTTCAG GGACGGTGTTAGTGAAAGTCAGTTTAACCAGGTGCTGAACATTGAGTTGCA
genomic: TTCTACACCAGTTCAGGGAAGAGAAAGCCCGACCAAGTCATCATCTTCAGgtctgttatt ... ctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCA
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:
49 (upstream exon),
49 (downstream exon)
Score:
357GGAGTGTCTGATTGACTTCTACACCAGTTCAGGGAAGAGAAAGCCCGACCAAGTCATCATCTTCAGgtctgttatt ... ctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCAACAAATCATTGAG
Block sizes:
49 (upstream exon),
47 (downstream exon)
Score:
51GGAGTGTCTGATTGACTTCTACACCAGTTCAGGGAAGAGAAAGCCCGACCAAGTCATCATCTTCAGgtctgttatt ... ctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCAACAAATCATTGAG
Block sizes:
49 (upstream exon),
47 (downstream exon)
Score:
66GGAGTGTCTGATTGACTTCTACACCAGTTCAGGGAAGAGAAAGCCCGACCAAGTCATCATCTTCAGgtctgttatt ... ctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCAACAAATCATTGAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
151GGAGTGTCTGATTGACTTCTACACCAGTTCAGGGAAGAGAAAGCCCGACCAAGTCATCATCTTCAGgtctgttatt ... ctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCAACAAATCATTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcttttatttctgttttgttatagcaccaacctgatttgtgtctctgattatagGGACGGTGTTAGTGAAAGTCAGTTTAATCAGGTGCTGAACATTGAGTTGCAACAAATCATTGAG
ctctgat putative branch site (score: 151)
tgtctct CT-rich tract
ttttgttata TA-rich tract