Sequence
atgc intronic sequence ATGC exonic sequencegttggctttaacctttttgattttttttaattaactccgcgcgcccttgtcggcggaacatgcattggcccttgactaattccttttaatatctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTAAGTGGGAAGTACTTTGCTAACTGTAATATAGCCAGCCCGAGCTCGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G128577_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA16G30060.1 (Glycine max), 3'ss of exon 7
gttggctttaacct--ttttgattttttttaattaactccgcgcgcccttgtcggcggaacatgcattggcccttgactaattccttttaatatctttgtta-agGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTAAGTGGGAAGTACTTTGCTAACTGTAATATAGCCAGCCCGAGCTCGCAAG
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actttcctgaaaatagtttaaaagtttttgaaataatttccc-ttcatatgttattg--acttg-atctttccatatttgctttcttccc-catccttactgtagGGAGCTGCAACAACATGCTATGTAGCATTGCATCCACAAGTGAGGGAAATCAGTGGCAAATATTTTTCAGATTGTAATATTGCCCCAACAATCTCAAAGG
upper sequence: GRMZM2G128577_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv16s0050g00750.t01 (Vitis vinifera), 3'ss of exon 9
gttggctttaacctttttgattttttttaattaactccgcgcgcccttgtcggcggaacatgcattggcc---cttga----ctaattccttttaatatctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTAAGTGGGAAGTACTTTGCTAACTGTAATATAGCCAGCCCGAGCTCGCAAG
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---agttctcaaatttt-ggctctgtttggtggaaaggaaaagaatatttca----aacctgcattgtacaaacttgagcttctgatttctcccatggtgtttgaca-gGGAGCTGCAACCACATGCTATGTGGCATTGCATCCACAGGTGAAGGGGGTGAGCGGCCAATATTTTTCTGACTGTAACATAGCCAAGCCCGGCGCACAGG
upper sequence: GRMZM2G128577_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv16s0050g00750.t01 (Vitis vinifera), 3'ss of exon 17
---gttggctttaacctttttgattttttttaatta-actccgcgcgcccttgtcggcggaacatgcattggcccttgactaattccttttaatatctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTAAGTGGGAAGTACTTTGCTAACTGTAATATAGCCAGCCCGAGCTCGCAAG
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taccatgtatttacatttgaggatctcgtctcatcatacgaaacatgcaaaactccattgtaaaaacttgagcttctaatttattg-----gatttttttgaca-gGGAGCTGCAACAACATGCTATGTGGCATTGCATCCACAGGTGAAGGGGGTGAGCGGCCAATATTTTTCTGACTGTAACATAGCCAAACCCAGCTCACAGGMapped 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|38687819|gb|CK144850.1|CK144850EST: CCGTTGGAAGGATCGTGCGTAGAAGCGTAGAACAG GGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTA
genomic: CCGTTGGAAGGATCGTGCGTAGAAGCGTAGAACAGgttggcttta ... ctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTA
EST:
gi|101392178|gb|EB818017.1|EB818017EST: CNNNNNNNAACACCGTTGGAAGGATCGTGCGTAGAAGCGTAGAACAG GGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGGTA
genomic: CTTTTTTTAACACCGTTGGAAGGATCGTGCGTAGAAGCGTAGAACAGgttggcttta ... ctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTA
EST:
gi|13490426|gb|BG517190.1|BG517190EST: CGTTGGAAGGATCGTGCGTAGAAGCGTAGAACAG GGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTA
genomic: CGTTGGAAGGATCGTGCGTAGAAGCGTAGAACAGgttggcttta ... ctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTA
EST:
gi|38688147|gb|CK145178.1|CK145178EST: TTGGAAGGATCGTGCGTAGAAGCGTAGAACAG GGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTA
genomic: TTGGAAGGATCGTGCGTAGAAGCGTAGAACAGgttggcttta ... ctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTA
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 3 RNA-Seq libraries.
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
5CTTTTTTTAACACCGTTGGAAGGATCGTGCGTAGAAGCGTAGAACAGgttggcttta ... ctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTAAGTGGGAAGTACTTTGCTAACTGTAATATAGCCAGCCCGAGCTCGCAAG
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
19CTTTTTTTAACACCGTTGGAAGGATCGTGCGTAGAAGCGTAGAACAGgttggcttta ... ctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTAAGTGGGAAGTACTTTGCTAACTGTAATATAGCCAGCCCGAGCTCGCAAG
Block sizes:
47 (upstream exon),
47 (downstream exon)
Score:
66CTTTTTTTAACACCGTTGGAAGGATCGTGCGTAGAAGCGTAGAACAGgttggcttta ... ctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTAAGTGGGAAGTACTTTGCTAACTGTAATATAGCCAGCCCGAGCTCGCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcggcggaacatgcattggcccttgactaattccttttaatatctttgttaagGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTAAGTGGGAAGTACTTTGCTAACTGTAATATAGCCAGCCCGAGCTCGCAAG
tctttgtt CT-rich tract
ttttaatatctttgtt TA-rich tract