Sequence
atgc intronic sequence ATGC exonic sequencegtattattcttttttctaacccatacctgctcatttgctttgtgtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGACGTTTACAGTTTTGGCGTTCTCTTGTTAGAAACTGTGACAGGAAGGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g44110.1 (Oryza sativa), 3'ss of exon 6
gtattattctttttt--ctaacccatacctg--ctcatttgctttgtgtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGACGTTTACAGTTTTGGCGTTCTCTTGTTAGAAACTGTGACAGGAAGGAAT
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gtattttcctctgctagctacccattatttgtactcatttgcatcctttgtttgccatatttcaaggagtacaataattctcatccattcttcttgatttagATATGTTGCACCTGAGTATGCTAACACGGGCATGTTGAATGAAAAGAGCGATGTTTATAGTTTTGGTGTTCTCTTGTTGGAAACTGTGACAGGAAGGGAA
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA14G03290.1 (Glycine max), 3'ss of exon 4
gtattattcttttttctaacccatacctgctcatttgct-ttgtgtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGACGTTTACAGTTTTGGCGTTCTCTTGTTAGAAACTGTGACAGGAAGGAAT
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---------gtatacagaaaatttattatctctttccttattttatactta-aaggatttgtacacttagga---actcacttttgttttggatttcagTTATGTGGCACCAGAATATGCTAACAGCGGTTTGTTAAATGAGAAGAGTGACATTTACAGCTTTGGTGTCCTCTTGCTGGAAGCAGTTACTGGAAGGGAC
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 4
gtattattctttt-ttctaacccatacctgctcatttgctttgtgtctttacaatgactt-----atagagtttaactttcctcatccatttttcttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGACGTTTACAGTTTTGGCGTTCTCTTGTTAGAAACTGTGACAGGAAGGAAT-
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----tatgcacatgtttcagtatctacttgactactttatagattttatttaaaggattgcataaatagaaacttattcctattggacctgttcccaatttcagtTATGTGGCACCGGAATATGCTAATACAGGTTTGTTAAATGAGAGGAGTGACATTTACAGCTTTGGTGTTCTCCTGCTAGAAGCAGTTACTGGAAAGGATC
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA02G45540.1 (Glycine max), 3'ss of exon 6
gtattattcttttttctaacccatacctgctcatttgctttgtgtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGACGTTTACAGTTTTGGCGTTCTCTTGTTAGAAACTGTGACAGGAAGGAAT
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---------gtatacagaaaatttattatctctttccttattttttacttaaaggatttatgcacttagga---actcacttctgttgtggatttcagTTACGTGGCACCAGAATATGCTAACAGTGGTTTGTTAAATGAGAAGAGTGACATTTACAGCTTTGGTGTCCTCTTACTGGAAGCAGTTACTGGAAGGGAT
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 4
gtattattcttttttctaacccatacctgctcatttgctttgtgtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGACGTTTACAGTTTTGGCGTTCTCTTGTTAGAAACTGTGACAGGAAGGAAT
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gtatgcagaatgtttcagtatctactatatagattttatttaaaggattgcattaa----tagaaacttactcatgttggacctgttcccaatttcagTTATGTGGCACCGGAATATGCTAATACAGGTTTGTTAAATGAGAGGAGTGACATTTACAGCTTTGGTGTTCTCCTGCTTGAAGCAGTTACTGGAAGGGAT
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 5
lower sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 4
-----gtattattcttttttctaacccatacctgctcatttgctttgtgtctttaca-atga----cttatagagtt-taactttcctcatccatttttcttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGACGTTTACAGTTTTGGCGTTCTCTTGTTAGAAACTGTGACAGGAAGGAAT
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gtaaagtccaaaactttgtaccctcctcaggccattaaggttattattatcttctcagatgatgtccttacaaagaaatcattgatgttgtttttgttattgttttcagATATGTAGCACCAGAATATGCTAATACAGGTCTTTTAAACGAAAAGAGTGATATATATAGCTTTGGTGTCTTGCTTCTTGAAGCTATAACTGGTCGAGAT
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 5
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 6
----------gtattattcttttttctaacccatacctgctcatttgctt---tgtgtctttacaatgacttat-agagtttaactttcct-catccatttttcttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGACGTTTACAGTTTTGGCGTTCTCTTGTTAGAAACTGTGACAGGAAGGAAT
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gtatgtttatatgttcatcttaagtcccctttagtctttatagtttttccacctgtatgatataaattttttatgagagcctcagaacctgacatcttttctctggatttcagTTATGTGGCACCAGAATATGCTAATACTGGCTTGTTAAATGAGAAGAGTGATATCTACAGCTTTGGTGTTCTCCTGCTGGAAGCAGTTACTGGAAGGGATMapped 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|5901151|gb|AW042251.1|AW042251EST: TTGGGATCAGACAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGG ATATGTTGCACCTGAATATGCTAATACGGGAATGTTAAATGAAAAGAGTGA
genomic: TTGGGATCAGACAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGGgtattattct ... cttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGACGTTTACAGTTTTGGCGTTCTCTTGTTAGAAACTGTGACAGGAAGGAAT
gtttaac putative branch site (score: 3)
ctttcctcatccattt CT-rich tract
tttaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattattcttttttctaacccatacctgctcatttgctttgtgtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGACGTTTACAGTTTTGGCGTTCTCTTGTTAGAAACTGTGACAGGAAGGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA