Sequence
atgc intronic sequence ATGC exonic sequencegtaactaaactattcttccattttgtccttacccttaccttttactcaccccttgtctgttttgccatggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G168249_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g08790.1 (Oryza sativa), 3'ss of exon 9
gtaactaaactattcttccattttgtccttaccctta-----ccttttactcaccccttgtctgttttgccatggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
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gtacctatacttttgttt-gttttacgtgtgattttagatggccttttaattactctttggctgttac----tgaacgcagGTATAGCGAACACAATGGATCTTCCTGAAAAGTTATTGCCTCGTATTTCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGCCCATATAATTATCGGCA
upper sequence: GRMZM2G168249_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA13G41490.1 (Glycine max), 3'ss of exon 9
-----------------------------------------------------------------------------------gtaactaaactattcttccattttg---tccttacccttaccttttactcaccccttgtctgttttgccatggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
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gtaagataatgcacttttcaattattttttcagtattatgatctcccagtttgcagaagtaatttaaaatagtgggaaaacaagaatccatatgattataacaacttgatgcctttgtgcattgcaaaaacttatttttcagtactaatgtaaccaattcagGGATAGCAAATACTATGGATCTTCCAGAGAAGTTACTTCCTCGTATATCAAGCCGAATGGGCATACAGAGGCTTTGCTTTGGCCCATATAATTATCAGCA
upper sequence: GRMZM2G168249_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA15G03900.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------------------------------------------gtaactaaactattcttccattttgtccttacccttaccttttactcaccccttgtctgttttgccatggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
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gtaagataatgcatttttcaattattttttcagtattatgatctcccagttttctgaagtaatttaaaatagttggaaaacaagaatccatatgattataacaatttga---tgcctttgtgcattgcaaaaacttattcttcagtactatcaattcagGGATAGCAAATACTATGGATCTTCCAGAGAAGTTACTTCCTCGTATATCAAGCCGAATGGGCATACAGAGGCTTTGCTTTGGCCCATATAATTATCAGCA
upper sequence: GRMZM2G168249_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv06s0004g00530.t01 (Vitis vinifera), 3'ss of exon 9
---------------------------------------------------------------------------------------------gtaactaaactattcttccattttgtccttacccttaccttttactcaccccttgt-ctgttttgcca---tggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
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gtaggacttttatttttttaacaaggtttatcttctcttgtgacaaatatagccatgtaatgttgtttccttttatagaataaggtattgtgagtggcacaggtgataaattgctacaacaaaagcagttgtagtaatacaattataatgctgtgttataaatctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAAGCCGAATGGGTATTCAAAGGCTTTGTTTTGGGCCCTATAATTATCAACA
upper sequence: GRMZM2G168249_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv06s0004g02050.t01 (Vitis vinifera), 3'ss of exon 10
--------------------------------------------------------------------------------------------gtaactaaactattcttccattttgtccttacccttaccttttactcaccccttgt-ctgttttgcca---tggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
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gtaggactttatttttttaacgaggtttatcttctcttgtgacaaatatagccatgtaatgttgtttcctttaatagaataaggtattgtgagtggcacaggtgataaattgctgcaacaaaagcagttgtagtaatacaattataatgctgtgttataaatctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAAGCCGAATGGGTATTCAAAGGCTTTGTTTTGGGCCCTATAATTATCAACAMapped 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|32931679|gb|CF036491.1|CF036491EST: TAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAG GTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
genomic: TAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
EST:
gi|15209030|gb|BI430914.1|BI430914EST: TGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAG GTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
genomic: TGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
EST:
gi|15209031|gb|BI430915.1|BI430915EST: TGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAG GTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
genomic: TGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
EST:
gi|60348765|gb|DN215738.1|DN215738EST: TAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAG GTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
genomic: TAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
EST:
gi|211040609|gb|FL332006.1|FL332006EST: TAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAG GTATAGCAAACACAATGGATCTTCCAGAWAAGTTATTGCCTCGTATATCAA
genomic: TAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
EST:
gi|60344624|gb|DN211597.1|DN211597EST: TAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAG GTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
genomic: TAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
EST:
gi|31354612|gb|CD438969.1|CD438969EST: TAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAG GTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
genomic: TAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAA
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),
45 (downstream exon)
Score:
317GTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
Block sizes:
48 (upstream exon),
44 (downstream exon)
Score:
93GTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
149GTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
Block sizes:
49 (upstream exon),
45 (downstream exon)
Score:
125GTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAGgtaactaaac ... atggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtccttacccttaccttttactcaccccttgtctgttttgccatggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA
tactcac putative branch site (score: 125)
ttttact TA-rich tract