Sequence
atgc intronic sequence ATGC exonic sequence...agaccacaatgttttttttaagaaatccggagtcaaacatcaaaatgtttcttttttccaatccgatgtcaccaaaacgtttcattatttgcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAGTTCATGACTGCCATGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 3'ss of exon 2
agaccacaatgttttttttaagaaatccggagtcaaacatcaaaatgtttcttttttccaatc-cgatgtca--cca-aaacgtttcattattt----gcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAGTTCATGACTGCCATGCAG
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---cca-aacgtttggttatgaaattatggtgatgcacatt----ttcttctgttatgaaattatgatcacaatccacaagcattacatttttccttggggcatttagGTCTGGGCAATCGCTGATTCCAAGCGTCAGGGTTATCTTGGATTCTCGGAGTTTATGACCGCAATGCAG
upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 2
agaccacaatgttttttttaagaaatccggagtcaaac-atcaaaatgtttcttttttccaatccgatgtcaccaaaacgtttcattatttgcatcttc---agGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAGTTCATGACTGCCATGCAG
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---ctgctgaattttaatgatgggatctatttccttgccacccctttgccttactatcagggttcta-gttgttttaaacttatattctttgtgtttgttgaagGTTTGGGCTATTGCAGATTCCAAACGACAAGGATTTCTTGGTTTCAGGGAGTTCATCACTGCAATGCAGMapped 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|71769027|gb|DR966964.1|DR966964EST: CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAG GTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
genomic: CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAGgtgaattgac ... gcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
EST:
gi|76283614|gb|DV023182.1|DV023182EST: CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAG GTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
genomic: CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAGgtgaattgac ... gcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
EST:
gi|71333237|gb|DR803673.1|DR803673EST: CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAG GTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
genomic: CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAGgtgaattgac ... gcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
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 1 RNA-Seqlibrary.
Block sizes:
48 (upstream exon),
44 (downstream exon)
Score:
65ACGGAGATGGCCGTCTGACGGGGAACGATGCGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAGgtgaattgac ... gcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAGTTCATGACTGCCATGCAG
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttcttttttccaatccgatgtcaccaaaacgtttcattatttgcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAGTTCATGACTGCCATGCAG
catcttc CT-rich tract
tttcattattt TA-rich tract