Sequence
atgc intronic sequence ATGC exonic sequencegtaaaattaaaacaaatatttaaatttattctgcttgctgtttttttttgtgatattgctttgggtgaacaattgagcatttgtgatgattttctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G090738_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 5
gtaaaattaaaacaaatatttaaatttattctgcttgctgtttttttttgtgatattgctttgggtgaacaattgagcatttgtgatgattttctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
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-----------------gtacaaatataatccttataatttttttactctatatgctcatgctggtcttgatcttgatatgtatgat----tcctttggtcagGCCACTGGGGAGGACTACTATGTTGAACCAGCTGATGAAAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTCATTAGGACAACCACTGGAAACCGTG
upper sequence: GRMZM2G090738_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g67134.1 (Oryza sativa), 3'ss of exon 5
gtaaaattaaaacaaatatttaaatttattctgcttgctgtttttttttgtgatattgctttgggtgaacaattgagcatttgtgatgattttctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
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gtacaaatacaatccttat--aaattttttactctatatgctcatgctcatg---ctgattttgat------cttgatatgtatgat----tcctttggttagGCCACTGGGGAGGACTACTATGTTGAACCAGCTGATGAAAGGCGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTCATTAGGACAACCACTGGAAACCGTG
upper sequence: GRMZM2G090738_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G06590.1 (Glycine max), 3'ss of exon 5
gtaaaattaaaacaaatatttaaatttattctgcttgctgtttttttttg--tgatattgctttgggtgaacaa-ttgagcatttgtgatgattttctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
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-------------gtatttatgagtctgctatgccttttgtgcccgagcgagtgcctttctttcagctgtgtaagctaatgagttgtatc--ttattttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG
upper sequence: GRMZM2G090738_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G06580.1 (Glycine max), 3'ss of exon 5
gtaaaattaaaacaaatatttaaatttattctgcttgctgtttttttttg--tgatattgctttgggtgaacaa-ttgagcatttgtgatgattttctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
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-------------gtatttatgagtttgctatgctgtttgtgccccagcgagtgcctttcttttggctgtgtaagctaatgagttgtatc--ttattttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG
upper sequence: GRMZM2G090738_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 5
gtaaaattaaaacaaatatttaaatttattctgcttgctgtttttttttgtga-tattgctttgggtgaacaattgagcatttgt--gatgattttctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
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-------------gtatttatgaatttgctatgctgtgtgtgtgtgtgtgcaactgctgcctttctctcagttttgttaattaattggttgtatccttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTGMapped 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|211279083|gb|FL069189.1|FL069189EST: GTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAG GCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
genomic: GTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
EST:
gi|60395892|gb|DN228762.1|DN228762EST: CAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAG GCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
genomic: CAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
EST:
gi|60345048|gb|DN212021.1|DN212021EST: AGGGCAATGTTGAG GCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
genomic: AGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
EST:
gi|32846847|gb|CD986528.1|CD986528EST: GTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAG GCCATTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
genomic: GTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
EST:
gi|211279085|gb|FL069191.1|FL069191EST: GTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAG GCCACTGGTGA
genomic: GTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGA
EST:
gi|67024091|gb|CO452840.1|CO452840EST: GTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAG GCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
genomic: GTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
EST:
gi|60672209|gb|DN474977.1|DN474977EST: GTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAG GCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
genomic: GTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
EST:
gi|60347188|gb|DN214161.1|DN214161EST: ATCAGGAGTATGAGGGCAATGTTGAG GCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
genomic: ATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTC
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:
156CCTACTGCACTGGTCTTCTTTTGGCTCGTCGTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
Block sizes:
47 (upstream exon),
48 (downstream exon)
Score:
60CCTACTGCACTGGTCTTCTTTTGGCTCGTCGTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
72CCTACTGCACTGGTCTTCTTTTGGCTCGTCGTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
Block sizes:
46 (upstream exon),
45 (downstream exon)
Score:
40CCTACTGCACTGGTCTTCTTTTGGCTCGTCGTGTTCTCAAGATCCGTGATTTGGATCAGGAGTATGAGGGCAATGTTGAGgtaaaattaa ... ctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgatattgctttgggtgaacaattgagcatttgtgatgattttctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG
ttttctgtt CT-rich tract
atgatttt TA-rich tract