Sequence
atgc intronic sequence ATGC exonic sequencegtatgttatgttattatatgctttctacatacaaatatgaggaacttgatatataaatttccttttattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G426275_T04 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os02g58590.1 (Oryza sativa), 3'ss of exon 11
gtatgttatgttattatatgct--ttctacatacaaatatgaggaacttg------atatataaatttccttt-----tattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA
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gtatgttgtat-attatatattaattatagttggaaagccaaggatttcatctgcaatgtatctaattgctttgctgctattcctgtcactgtggtattgaagGACAATCATGGCCGTTTCTTCCTGGAATGACAATGGACAAAAGCAATTTGTTTACGACCCAA
upper sequence: GRMZM2G426275_T04 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA06G00230.1 (Glycine max), 3'ss of exon 11
gtatgttat-----gttattatatgct-----ttctacatacaaatatgaggaacttgatatataaatttcct---tttattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA
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gtatgttttctagaattgcagaatgctgaatttattttcttttgattcgctacactagttttttaagactttggaatctctgttgataatttttctattctagATCCATTATGGCTGTTTCCTCATGGAATGACAATGGACAAAAGCAGTTTGTACATGATCCAT
upper sequence: GRMZM2G426275_T04 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA04G00200.1 (Glycine max), 3'ss of exon 11
--gtatgttatgttattata---tgctttctacatacaaatatgag-----gaacttgatatataaatttcct---tttattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA
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gtatgtgttctagaagcgcagaatgctgaatttattttcttttgattcactgcactagttttttaagactccggaatctctgttgttaatatttctattctagATCCATTATGGCTGTTTCCTCATGGAATGACAATGGACAAAAGCAGTTTGTACATGATCCAT
upper sequence: GRMZM2G426275_T04 (Zea mays), 3'ss of exon 11
lower sequence: AT4G38240.3 (Arabidopsis thaliana), 3'ss of exon 11
------------------gtatgttatgttattatatgctttctacatacaaatatgaggaacttgatatataaatttccttttattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA
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gtatgttacctactgaagctagactcttatagtataag-tttccacaga-gtatacaaatgtttttattactgtttctcattcttttctggtc-caaacatgtgttagAACCATTATGGCTGCTTCATCATGGAATGATAATGGACAGAAGCAGTTTGTGCATGATCCCT
upper sequence: GRMZM2G426275_T04 (Zea mays), 3'ss of exon 11
lower sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------gtatgttatgttat-tatatgctttctacatacaaatatgaggaacttgatatataaatttccttttattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA--------------
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gtgtgtcttttggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttt-tctgcacttaccttggt-ataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTTGTAAGCTCTTCTGA
upper sequence: GRMZM2G426275_T04 (Zea mays), 3'ss of exon 11
lower sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 11
-----------------------------gtatgttatgttat-tatatgctttctacatacaaatatgaggaacttgatatataaatttccttttattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA
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gtgtgtcttctggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttt-tctgcacttacctcggt-ataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTTMapped 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|148986617|gb|EE030388.2|EE030388EST: ATTTTTTCGACTACTTCGAGGCTGCAGCTAAATTACTTTGATA-TGACAA GACGAATATGGCTGTTTCTTCTTG
genomic: ATTTTTTCGACTACTTCGAGGCTGCAGCTAAATTACTT-GATAATGACAAgtatgttatg ... tgtacggaagGACGATTATGGCTGTTTCTTCTTG
EST:
gi|74244431|gb|DT652345.1|DT652345EST: GATTTTTTCGACTACTTCGAGGCTGCAGCTAAATTACTTGATAATGACAA GACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGC
genomic: GATTTTTTCGACTACTTCGAGGCTGCAGCTAAATTACTTGATAATGACAAgtatgttatg ... tgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgaggaacttgatatataaatttccttttattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA
ttctaat putative branch site (score: 2)
atatataaatttcctt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttatgttattatatgctttctacatacaaatatgaggaacttgatatataaatttccttttattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC