Sequence
atgc intronic sequence ATGC exonic sequenceTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTACAACTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGGgtatgccatacttcacagattatccttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G107101_T06 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os01g08700.8 (Oryza sativa), 5'ss of exon 10
TCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTACAACTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGGgtatgccatac--ttcacagattatccttgcaaaattgtcaa-----gttgcctatgatacaaaattgtc-taac--cacatctttggttc--aactttttgttaactgtggca-ctttattttttgtag---
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TCTCGAGGCACCACCATCATGGGCCCCAGATGCACTTGATGCAGCAGTACAGCTTGTTGAACTCCTTAGAGCAGCGGAAGATTACGATTCTGGCATGCGGgtatatcatacatctctctggctgttgtttcagtgctatcaatcaagatgacacatcatgcaatattatcataacagcacattatgtgttttgaatattttattgattgtcatagctttgttttatgttttag
upper sequence: GRMZM2G107101_T06 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA09G07240.1 (Glycine max), 5'ss of exon 9
TCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTACAACTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGGgtatgccata----cttca--cagattatc-cttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtag
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TTTAGAAGCACCCCCATCATGGGCTCCGGATGCCCTTGATGCTGCTGTGCAGCTTGTAGAGCTTCTTCGAGCTGCTGAAGATTATGCTTGTGGAATAAGGgtaagctgtataatctttatgcaaattctaacctggggaatagttaagaaatcagaagtagaaagtattattgaaaaataaagcattta---ttatatcaaat---------------------
upper sequence: GRMZM2G107101_T06 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA20G30980.1 (Glycine max), 5'ss of exon 2
TCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTACAACTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGGgtatgc-catacttcacagattatccttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggtt-caactttttgttaactgtggcactttattttttgtag
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----GAAGCACCCCCATCGTGGGCTCCAGATGCACTTGATGCTGCTGTGCAGCTTGTGGAGCTTCTTCGAGCTGCTGAAGATTATGCATCTGGCATAAGGGCAAgtataatcttgatagaca------gaataactgtgatgctggcattaatggaaacctgcattttcattattatggtttccatatgaaatttaattagacaatcgtc---------
upper sequence: GRMZM2G107101_T06 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA10G36600.1 (Glycine max), 5'ss of exon 9
TCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTACAACTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGGgtatgccatacttcacagat--tatccttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtag
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TCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTGCAGCTTGTGGAGCTTCTTCGAGCTGCTGAAGATTATGCATCTGGCATAAGGgtaagc-ataatgtgcctttcctgccttttcattattat-ggttttcatatgaataaaaattg-------atagattcactttaacgtct--tcaataaaaaaatgaaaag--------
upper sequence: GRMZM2G107101_T06 (Zea mays), 5'ss of exon 9
lower sequence: AT1G22770.1 (Arabidopsis thaliana), 5'ss of exon 8
TCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTACAACTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGGgtatgcc--atac---ttcacagattatccttgcaaaa--ttgtcaagttgcctatgatacaaaa---ttgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtag
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CTTAGAAGCACCACCGTCGTGGGCTCCAGATGCACTTGATGCTGCTGTACAGCTTGTGGAACTCCTTCGAGCTGCTGAAGATTATGCATCTGGTGTAAGGgtaagcgtaatatgaatctcttaattaccctccagaaagctaattgtgtcccttgttataaaaaaagtcagctttggtatgtcatcaaagaaatcagct-ttgatcacattctttttcttggtgcag
upper sequence: GRMZM2G107101_T06 (Zea mays), 5'ss of exon 9
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 5'ss of exon 10
TCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTACAACTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGGgtatgccatacttcacagattatccttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtag
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ACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTACAGCTTGTGGAACTTCTTCGGGCAGCTGAAGATTATGCATCAGGCATGAGGgtaagttctatt------atctccactgcaacgac-ttaaatatgttctgttgctatgccagtaaact-caaattgaattcagcatttgcatt---------ctttaattcttttggMapped 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|20803064|gb|BQ294114.1|BQ294114EST: ATCTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGG CTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCA
genomic: AACTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGGgtatgccata ... ttttttgtagCTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTACAACTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGGgtatgccatacttcacagattatccttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA