Sequence
atgc intronic sequence ATGC exonic sequencegtatgcatgcgtggcctgagctcaactccgcatgcgcattcgccctgcttgcgatgtgtgcggcaatgcgctaatgctcatttgcatcgaaagaaacgaagctttgtttgattcggttcagatcatctcgacagatgaacatgtagaaatacggtctcattttttcatttctgcatgcgtctcctccagATTAGCAGCTACTCTTCCATGGACGGCGTCCTGTACTGCAAGACGCACTTTGAACAGCTCTTCAAGGAGACAGGGACCTTCTCAAAGAACTTTCAAGGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G170034_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g42820.1 (Oryza sativa), 3'ss of exon 1
gtatgcatgcgtggcctgagctcaactccgcatgcgcattcgccctgcttgcgatgtgtgcggcaatgcgctaatgctcatttgcatcgaaagaaacgaagctttgtttgattcggttcagatcatctcgacagatgaacatgtagaaatacggtctcattttttcatttctgcatgcgtctcctccagATTAGCAGCTACTCTTCCATGGACGGCGTCCTGTACTGCAAGACGCACTTTGAACAGCTCTTCAAGGAGACAGGGACCTTCTCAAAGAACTTTCAAGGTA
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---------------------------------------------------------------------------gtatgtatatatggcatcgatcggccctgcaacatgttcagtttttattaggtaattaaatcaactatcacatttttcgttcaaaa----catttacgcat-------ctgcagATGTGTAACTACTCTTCGATGGATGGTGTCCTGTACTGCAAGACGCACTTTGAGCAGCTCTTCAAAGAGACGGGGAGCTTCTCAAAGAAATTCTCGCAAG
upper sequence: GRMZM2G170034_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT3G61230.1 (Arabidopsis thaliana), 3'ss of exon 1
gtatgcatgcgtggcctgagctcaactccgcatgcgcattcgccctgcttgcgatgtgtgcggcaatgcgctaatgctcatttgcatcgaaagaaacgaagctttgtttgattcggttcagatcatctcgacagatgaacatgtagaaatacggtctcattttttcatttctgcatgcgtctcctccagATTAGCAGCTACTCTTCCATGGACGGCGTCCTGTACTGCAAGACGCACTTTGAACAGCTCTTCAAGGAGACAGGGACCTTCTCAAAGAACTTTCAAGGTA
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---------------------------------------------------------------------------------------------gtatctatctatcttccttttcctccattgttccctcatgaaaaaaaaaacacaaagagaacatctttcttc--------------tccttttcagATATGTAACTACTCATCCATGGATGGAGTTTTGTATTGCAAGACCCATTTTGAACAGCTCTTCAAAGAATCTGGAAATTTCAGCAAGAATTTCCAAACAG
upper sequence: GRMZM2G170034_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT1G01780.1 (Arabidopsis thaliana), 3'ss of exon 1
gtatgcatgcgtggcctgagctcaactccgcatgcgcattcgccctgcttgcgatgtgtgcggcaatgcgctaatgctcatttgcatcgaaagaaacgaagctttgtttgattcggttcagatcatctcgacagatgaacatgtagaaatacggtctcattttttcatttctgcatgcgtctcctccagATTAGCAGCTACTCTTCCATGGACGGCGTCCTGTACTGCAAGACGCACTTTGAACAGCTCTTCAAGGAGACAGGGACCTTCTCAAAGAACTTTCAAGGTA
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----------------------------------------------------------------------------------------------------------gtgcactcattactcattttcttgttagatcttc-tatgatcatattatatcaacaatttatct----atgtgttgatggcagATGAGCAACTATTCCTCCATGGACGGAGTTTTGTACTGCAAGACTCATTTTGAGCAACTCTTCAAGGAATCTGGCAATTTCAGCAAAAACTTTCAACCAG
upper sequence: GRMZM2G170034_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv02s0025g03980.t01 (Vitis vinifera), 3'ss of exon 1
gtatgcatgcgtggcctgagctcaactccgcatgcgcattcgccctgcttgcgatgtgtgcggcaatgcgctaatgctcatttgcatcgaaagaaacgaagctttgtttgattcggttcagatcatctcgacagatgaacatgtagaaatacggtctcattttttcatttctgcatgcgtctcctccagATTAGCAGCTACTCTTCCATGGACGGCGTCCTGTACTGCAAGACGCACTTTGAACAGCTCTTCAAGGAGACAGGGACCTTCTCAAAGAACTTTCAAGGTA
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----------------------------------------------------------------------------------tgaatcaaaacggac-aatatctacacagtttttattttataaggtgttcgggt---tttatatgtttatggtctcatgccatgatatgt---catgtatgatatagATGAGCAACTACTCTTCCATGGATGGAGTCTTGTACTGCAAGCCTCATTTTGAGCAACTCTTCAGGGAATCTGGCAGTTTGAGTAAGAAGTTCCAATCATMapped 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|101401202|gb|EB822279.1|EB822279EST: CGTACCACAAGACATGCTTCAAGTGCAGCCACTGCAAGGGCGTCCTCTCG ATTAGCAGCTACTCTTCCATGGACGGCGTCCTGTACTGCAAGACGCACTTT
genomic: CGTACCACAAGACATGCTTCAAGTGCAGCCACTGCAAGGGCGTCCTCTCGgtatgcatgc ... tctcctccagATTAGCAGCTACTCTTCCATGGACGGCGTCCTGTACTGCAAGACGCACTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgaacatgtagaaatacggtctcattttttcatttctgcatgcgtctcctccagATTAGCAGCTACTCTTCCATGGACGGCGTCCTGTACTGCAAGACGCACTTTGAACAGCTCTTCAAGGAGACAGGGACCTTCTCAAAGAACTTTCAAGGTA
cgtctcctcc CT-rich tract
tcattttttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcatgcgtggcctgagctcaactccgcatgcgcattcgccctgcttgcgatgtgtgcggcaatgcgctaatgctcatttgcatcgaaagaaacgaagctttgtttgattcggttcagatcatctcgacagatgaacatgtagaaatacggtctcattttttcatttctgcatgcgtctcctccagATTAGCAGCTACTCTTCCATGGACGGCGTCCTGTACTGCAAGACGCACTTTGAACAGCTCTTCAAGGAGACAGGGACCTTCTCAAAGAACTTTCAAGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC