Sequence
atgc intronic sequence ATGC exonic sequencegtatggttttgatatttgccatttctatttgttttaagcattttttactagtttgatctggattgttctgacaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 10
lower sequence: 13113.m00246 (Oryza sativa), 3'ss of exon 13
gtatggttttgatatttgccatttctatttgttttaagcattt-tttactagtttgatctggattgttctgacaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
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gtatgtttttgctgcttgtattttatgtttaaga-aggcattcatgcagtagtaagatatggatttattt--------tgttcttctttcagCTGTCAATAAGGATGATCTGTTGCAAATGGTAAGATTTGGTGCGGAAATGGTATTCAGTTCCAAGGACAGCACAATTACAGATGAGGATATTGACCGTAT
upper sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 13
gtatggttttgatatttgccatttctatttgttttaagcattttttactagtttgatctggattgttctgacaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
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gttagttttttgcttcataaaatgttgcttgacaaatgaaaattcaaaca--tcaattaatgttcttctg-------tcgtggtgtttcagCTGTCAATAAGGATGAGCTATTGCAGATGGTCAGATTTGGTGCTGAAATGGTATTCAGCTCCAAGGATAGCACAATAACAGATGAAGATATTGACCGCAT
upper sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 13
gtatggttttgatatttgccatttctatttgttttaagcatttt-ttactagtttgat---ctggattgttctg---acaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
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-----gtaagggtttctggattttatcttcgtttttattattttgttgctagatttatggattatataacatggtacacaatctatttgtgtatgcagCTGTTAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGTGCTGAAATGGTTTTTAGTTCCAAGGACAGTACAATTACAGATGAGGATATTGACAGAAT
upper sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 13
gtatggttttgatatttgccatttctatttgttttaagcatttt-ttactagtttgat---ctggattgttctg-acaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
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gtaagggttt----tctgggttttatctttgtttttattattttgttgcaagattgatggattatataacatggtacaatctatttgtgtatgcagCTGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGTGCTGAAATGGTTTTTAGTTCCAAGGACAGTACAATTACAGATGAGGATATTGACAGAAT
upper sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 13
gtatggttttgatatttgccatttctatttgttttaagcattttttactagtttgatctggattgttctgacaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
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gtaggaattcaatgaataacttttcttgtttctttgctgaaagttgtgtggattgtctaatatggttccattggcttt----tatgtgcagCGGTAAATAAAGATGAATTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAAGATATTGATAGAAT
upper sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 13
gtatggttttgatatttgccatttctatttgttttaagcattttttactagtttgatctggattgttctgacaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
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gtatggattcaatgaataatttttcttgtttctttgctgaaagttgtgtggattgtctaatgtggttccattga--tttttatgtgc--agCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
upper sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 13
gtatggttttgatatttgccatttctatttgttttaagcattttttactagtttgatctggattgttctgacaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
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-----------gtaagtgcgttatacagtgatt----gctttatgcattggttcatctctgacagaattggtatttatcttaactatgcagCTGTCAATAAGGATGAGTTGCTTCAAATGGTAAGATATGGTGCTGAGATGGTGTTCAGTTCTAAAGATAGCACAATCACAGACGAGGATATTGATAGAAT
upper sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 13
gtatggttttgatatttgccatttctatttgttttaagcattttttactagtttgatctggattgttctgacaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
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gtaagtgcttgtgtactgaggctgttagatgtattggattttctcttacatatatatactgatttcttt--------tctttgctttccagCTGTTAATAAGGATGAGTTGCTTCAAATGGTGAGATATGGTGCTGAAATGGTGTTTAGTTCTAAAGATAGCACAATTACGGATGAGGATATTGACAGAAT
upper sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 13
gtatggttttgatat-ttgccatttctatttgttttaagcattttttactagtttgatctggattg------ttctgacaacattctcatttatta-agCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
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gtgagccatttctgcattacaagcttgctttgcactatgacatgctaattcatagaactagaaccactaacattttgttgtttttgtgggcttttgcagCTGTGAACAAAGATGAGCTACTGCAAATGGTCAGGTTTGGTGCTGAAATGGTTTTCAGCTCCAAGGATAGCACAATTACGGATGAAGACATAGACAGGATMapped 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|21891766|gb|BQ744979.1|BQ744979EST: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAA CTGTCAATAAGGATGATCTTCTGCAAATGGTGCG
genomic: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAAgtatggtttt ... atttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCG
EST:
gi|87155727|gb|DY400516.1|DY400516EST: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAA CTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGG
genomic: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAAgtatggtttt ... atttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGG
EST:
gi|32930781|gb|CF035593.1|CF035593EST: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAA CTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGG
genomic: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAAgtatggtttt ... atttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGG
EST:
gi|31351381|gb|CD435738.1|CD435738EST: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAA CTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGG
genomic: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAAgtatggtttt ... atttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGG
EST:
gi|32930784|gb|CF035596.1|CF035596EST: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAA CTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGG
genomic: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAAgtatggtttt ... atttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGG
EST:
gi|22546162|gb|BU098473.1|BU098473EST: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAA CTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGG
genomic: AGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAAgtatggtttt ... atttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGG
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),
47 (downstream exon)
Score:
336TACACTATTGAGGAAAAGGTGATTGAGAGAGCATATAAGAAGCTAGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAAgtatggtttt ... atttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
Block sizes:
49 (upstream exon),
47 (downstream exon)
Score:
83TACACTATTGAGGAAAAGGTGATTGAGAGAGCATATAAGAAGCTAGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAAgtatggtttt ... atttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
Block sizes:
49 (upstream exon),
45 (downstream exon)
Score:
68TACACTATTGAGGAAAAGGTGATTGAGAGAGCATATAAGAAGCTAGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAAgtatggtttt ... atttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
Block sizes:
47 (upstream exon),
47 (downstream exon)
Score:
82TACACTATTGAGGAAAAGGTGATTGAGAGAGCATATAAGAAGCTAGCATTGGATGCTTTGGTTATTCAGCAAGGACGATTGGCAGAGCAGAAAAgtatggtttt ... atttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcattttttactagtttgatctggattgttctgacaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
ttctgac putative branch site (score: 82)
ttctcattt putative PPT
attctcatttattaa TA-rich tract