Sequence
atgc intronic sequence ATGC exonic sequencegttctaacttcaatgttttgttctgtgttctttgttctttgtgtacactatatcaccaaccatgttccttcctgatctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G151549_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G16090.1 (Glycine max), 3'ss of exon 3
----------gttctaacttcaatgttttgttctgtgttctttgttctttgt-gtacactatatcaccaaccatgttccttcctgatctttgg-gcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
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gttgttcttgtttgtcagttggtctttggagtagatgcatgttcttgtttgttgtgcttaaaatatttaatatagactggtggtgaactttgttgcagAATTTTGCATCACCTTTGAACCAGGTGCAAAGCAGAATATGGCTGATGCATTGGAGTCTGTTCATCTTTTTTAATCATGACAATGGGAGAACACAAATAA
upper sequence: GRMZM2G151549_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA02G33770.1 (Glycine max), 3'ss of exon 3
----------------------------------------gttctaacttcaatgttttgttctgtgttctttgt-tctttgtgtacactatatcac---caaccatgttccttcctgatctttgg-gcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
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gttgttcttgtttgtcagttgatctttggagtagatgcatgttcttgtttgtcagttgatctttggagtagatgcatgttcttgtttgttatgcttaatatattaatatagactggtgaacttcgttgcagAATTTTGCATCACCTTTGAACCAGGTGCAAAGCAGAATATGGCTGATGCATTGGAGTCTGTTCATCTTTTTTAATCATGACAATGGGAGAACACAAATAA
upper sequence: GRMZM2G151549_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT3G57290.1 (Arabidopsis thaliana), 3'ss of exon 3
gttctaacttcaa---tgttttgttctgtgttctttgttctttgtgtacactatatcaccaaccatgttccttcctgatc-tttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
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gttagtatttaaaacttcttctagtttgcgacctttgaaatcaatataga-tgtgagagtatatatgctaactaccatttgttttttcagAGTTTTTCATCGCCGTTAAACCAGGTGCAGAACAGGATTTGGTTGATGCATTGGGGTCTGTATATCTTTTTTAACCATGATAATGGAAGGACACAGATCA
upper sequence: GRMZM2G151549_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s0252g00070.t01 (Vitis vinifera), 3'ss of exon 3
---gttctaacttcaatgtt--ttgttctgtgttctttgttctttgtgtacactatatc-accaaccatgttccttcctgatctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
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gtcactgtcatatgcatattggttgctctgtacagtttgttttgt-tgcatgatatatttgctaatcatgagttctcttg---------cagAGTTACGCTTCACCTCTGAATCAGGTGCAAAGTAGAATATGGCTAATGCATTGGAGTCTCTTCATCTTTTTCAACCATGACAATGGGCGAACACACATAAMapped 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|148947189|gb|EC892527.2|EC892527EST: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAG AACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
genomic: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
EST:
gi|149086591|gb|EE176135.2|EE176135EST: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAG AACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
genomic: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
EST:
gi|148945927|gb|EC891220.2|EC891220EST: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAG AACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
genomic: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
EST:
gi|71772604|gb|DR970532.1|DR970532EST: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAG AACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
genomic: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
EST:
gi|211543296|gb|FL204964.1|FL204964EST: CGTAGCTTTGGAGGAAACTCA-CCGCTTGAAGGAAATAATTGATTCAAAG AACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
genomic: CGTAGCTTTGGAGGAA-CTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
EST:
gi|148932020|gb|EC875324.2|EC875324EST: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAG AACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
genomic: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
EST:
gi|148942799|gb|EC887829.2|EC887829EST: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAG AACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
genomic: ACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCAT
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:
558GAGTGCCCTCTGGGGAAAGCTGGCAGCAGAAATCCTAATGCAGAACTGGGACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
393GAGTGCCCTCTGGGGAAAGCTGGCAGCAGAAATCCTAATGCAGAACTGGGACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
381GAGTGCCCTCTGGGGAAAGCTGGCAGCAGAAATCCTAATGCAGAACTGGGACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
368GAGTGCCCTCTGGGGAAAGCTGGCAGCAGAAATCCTAATGCAGAACTGGGACGTAGCTTTGGAGGAACTCAACCGCTTGAAGGAAATAATTGATTCAAAGgttctaactt ... ctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttctttgtgtacactatatcaccaaccatgttccttcctgatctttgggcagAACTTCTCATCACCTCTGAATCAGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
tcctgat putative branch site (score: 368)
ttccttcctgatcttt CT-rich tract
actatat TA-rich tract