Sequence
atgc intronic sequence ATGC exonic sequencegtgagggggcctcaaattaaattcctccctccctctccccattgctcgggctctcacttattaaaataacccccgtggtgtggtgtggtccgcttgccgattccgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAGGTGAGCTCCCACCGCATTCAATTTTTAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G319187_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ36636 (Selaginella moellendorffii), 3'ss of exon 3
gtgagggggcctcaaattaaattcctccctccctctccccattgctcgggctctcacttattaaaataacccccgtggtgtggtgtggtccgcttgccgattccgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAGGTGAGCTCCCACCGCATTCAATTTTTAAA
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-------------------------------------gtgagtgaaaaaaatcgctttttt-----ttcttttttcgaaaggaggttaccgatttgcgggtcc---attgcagGGTGTTTCTTCACTCAAGGAGATCCCGGTTGTGATCATGTCGTCTGAAAACGTAGAACAAAGGATAAACAG-----------------------------
upper sequence: GRMZM2G319187_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ18081 (Selaginella moellendorffii), 3'ss of exon 3
gtgagggggcctcaaattaaattcctccctccctctccccattgctcgggctctcacttattaaaataacccccgtggtgtggtgtggtccgcttgccgattccgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAGGTGAGCTCCCACCGCATTCAATTTTTAAA
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------gtgagtgaaaaaaatcgcttttttttctttttccaaaa---ggaggtttaccgatt----------------tgcgg----gtccact----ggttt--gatggcagGGTGTTTCTTCACTCAAGGAGATCCCGGTTGTGATCATGTCGTCTGAAAACGTAGAACAAAGGATAAACAG-----------------------------Mapped 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|148965681|gb|EE016536.2|EE016536EST: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAG GGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
genomic: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
EST:
gi|211335022|gb|FL082273.1|FL082273EST: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAG GGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
genomic: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
EST:
gi|148965682|gb|EE016537.2|EE016537EST: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAG GGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
genomic: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
EST:
gi|211335025|gb|FL082276.1|FL082276EST: ACTACTGCWTGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAG GGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
genomic: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
EST:
gi|211335024|gb|FL082275.1|FL082275EST: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAG GGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
genomic: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
EST:
gi|149099490|gb|EE185528.2|EE185528EST: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAG GGGTCCTCATCGCTCAAGGACATTCCGGGGGTGATCATGTCGTCCTGAGAA
genomic: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTC-TGAGAA
EST:
gi|211335021|gb|FL082272.1|FL082272EST: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAG GGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
genomic: ACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAAC
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:
62GAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAGGTGAGCTCCCACCGCATTCAATTTTTAAA
Block sizes:
49 (upstream exon),
46 (downstream exon)
Score:
70GAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAGGTGAGCTCCCACCGCATTCAATTTTTAAA
Block sizes:
49 (upstream exon),
35 (downstream exon)
Score:
21GAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAGGTGAGCTCCCACCGCATTCAATTTTTAAA
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
79GAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAGgtgagggggc ... cgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAGGTGAGCTCCCACCGCATTCAATTTTTAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattaaaataacccccgtggtgtggtgtggtccgcttgccgattccgggatgcagGGGTCCTCATCGCTCAAGGACATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAGGTGAGCTCCCACCGCATTCAATTTTTAAA
aaataac putative branch site (score: 79)
aaataa TA-rich tract