Sequence
atgc intronic sequence ATGC exonic sequenceAGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAGCAAATTCCTATGCTCTTGGTTGAGAGACAAGCTCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgtcaatgtgtttaactttccatttcattcatggaatattgttatttctgttctttctagtatcttgacttcgaaatgttcttttatttctcactattgaatgtag
Basic information
species | Glycine max |
transcript | GLYMA01G38640.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G38640.3 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os12g40490.1 (Oryza sativa), 5'ss of exon 10
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAGCAAATTCCTATGCTCTTGGTTGAGAGACAAGCTCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgtca---atgtgtttaactttccat-ttcattcatggaatattgttat-ttctgttctttctagtatcttgacttcgaaatgttcttttatttctcactattgaatgtag
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GGAATTTTTTGAAGGTCTGAACATGAAAGTGGAGCAACAAGTTCCAATACTCTTGGTTGAGAGACAGGCTCTAAATGAGGCTTTAGAAACTGAGAAAAATgtaagtggcatgaacatgagagttttgttatgtttttgcgcagaatgttagtatattttgaacttacaaggttttcaatttc----tgtcatctcag-------------------
upper sequence: GLYMA01G38640.3 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G099328_T04 (Zea mays), 5'ss of exon 9
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAGCAAATTCCTATGCTCTTGGTTGAGAGACAAGCTCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgtcaatgtgtttaactttccatttcattcatggaatattgt-tatttctgttctttctagtatcttgacttcgaaatgttcttttatttctcactattgaatgtag
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GGAATTTTTTGAAGGTTTGAACATGAAAGTAGAACAGCAAATTCCATTACTTTTGGTTGAGAGGCAGGCTCTTAATGAAGCCTTGGAAGCCGAGAAAAATgtaagtggca------tgaactggttatttggtgcacaatacttgacatattctcttaacttatgacatttttattttgctttgtttaag----------------------
upper sequence: GLYMA01G38640.3 (Glycine max), 5'ss of exon 5
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 5'ss of exon 8
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAGCAAATTCCTATGCTCTTGGTTGAGAGACAAGCTCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgtcaatgtgtttaactttccatttcattcatggaatattgttatttctgttctttctagtatcttgacttcgaaatgttcttttatttctcactattgaatgtag
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TGAATTTTACGAAGGCTTACATATGAAAGTGGAACAGCAAATTCCTATGCTTTTGGTGGAGAGATCAGCTCTAAACGAAGCTATGGAAGGAGAGAAACACgtaaa-------------acctctatatcttattgatactatgtttatactctctctttctctctcgctcatttgtttcaacctacttctatctaattttgctgcag----
upper sequence: GLYMA01G38640.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 9
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAGCAAATTCCTATGCTCTTGGTTGAGAGACAAGCTCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgtcaatgtgtttaactttccatttcattcatggaatattgttatttctgttctttctagtatcttgacttcgaaatgttcttttat-ttctcactattgaatgtag--
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AGAATTTTATGAGGGTTTGAATATGAAAGTGGAGCAGCAAGTCCCTCTTCTCTTGGTTGAGAGACAAGCACTAAATGAGGCCATGGAGGGAGAAAAGAATgtaagggctaatgcattgaagtgatcattt--ttcatagcaacaggtactttcttgtcttt----tattttaagcttccatcaagtttgaatgttctctttattttatgggcag
upper sequence: GLYMA01G38640.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 12
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAGCAAATTCCTATGCTCTTGGTTGAGAGACAAGCTCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgtcaatgtgtttaact--ttccatttcattc--atggaatattgttatttctgttctttctagtatcttgacttcgaaatgttcttttatttctcactattgaatgtag
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AGAATTTTATGAGGGTTTGAATATGAAAGTGGAGCAGCAAATCCCTCTTCTCTTGGTTGAGAGACAAGCACTAAATGAGGCCATGGAGGGAGAAAAGAGTgtaaggactaatgcattgaagtgatcatatttcataccaacaggaattttctcgtcttgtattttaagtttccatgaagtttgaatgttctctttattgtatgggcag-------Mapped 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|18039854|gb|BM308148.1|BM308148EST: TCTTGGTTGAGAGACAAGCTCTGAATGAGGCTATGGAGGGAGAAAAGAAT GGTCATCACCACTTACCTGAAACTAGAGGGCTATGCTTGTCAGAAGAGCAA
genomic: TCTTGGTTGAGAGACAAGCTCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgtca ... ttgaatgtagGGTCATCACCACTTACCTGAAACTAGAGGGCTATGCTTGTCAGAAGAGCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAGCAAATTCCTATGCTCTTGGTTGAGAGACAAGCTCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgtcaatgtgtttaactttccatttcattcatggaatattgttatttctgttctttctagtatcttgacttcgaaatgttcttttatttctcactattgaatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA