Sequence
atgc intronic sequence ATGC exonic sequenceTGCCGCCAAAGATGACATTGATTCTGAGGAGTATGAAACTCATGCCACTGTTTTGGATAAGTTGTTGGCATGGGAGAAGAAACTTTATGAAGAGGTCAAGgtaggtgtcaatgtccatgatcttgttgcctttgtcattatgttttttgttttctattcttggtagagtattaagactatctattcagttcaattttgat...
Basic information
species | Glycine max |
transcript | GLYMA04G08400.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G08400.1 (Glycine max), 5'ss of exon 2
lower sequence: AT5G25590.1 (Arabidopsis thaliana), 5'ss of exon 2
TGCCGCCAAAGATGACATTGATTCTGAGGAGTATGAAACTCATGCCACTGTTTTGGATAAGTTGTTGGCATGGGAGAAGAAACTTTATGAAGAGGTCAAGgtaggtgtcaatgtccatgatcttgttgcctttgtcattatgttttttgttttctattcttggtagagtattaagactatctattcagttcaattttgat
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AGGTGGAAAAGATGATCAAGAATCAGATGAGCATGAAACTCATGCTACGGTGTTGGATAAATTGTTAGCATGGGAGAAGAAACTCTATGATGAAGTGAAGgtacttttaacttt---taagctgatcattgctatcagaag--tgaatgatgtttagt-tgagtgcattgttttggtggtgtag----------------
upper sequence: GLYMA04G08400.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ35555 (Selaginella moellendorffii), 5'ss of exon 2
TGCCGCCAAAGATGACATTGATTCTGAGGA---GTATGAAACTCATGCCACTGTTTTGGATAAGTTGTTGGCATGGGAGAAGAAACTTTATGAAGAGGTCAAGgtag-gtgtcaatgtccatgatcttgttgcctttgtcattatgttttttgttttctattcttggtagagtattaagactatctattcagttcaattttgat
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---CAGTGGATTTGACATTGAGGCTGGTGGCATGTCCGGGAGTCACGCTGGAACTTTGGATCGACTTTACGCATGGGAGAAGAAATTGTATGAAGAGGTCAAGgtagtacttctacttccgggttcttc---gatctggaactaagctctt-attctctgtgcttttcttcttctcag--------------------------
upper sequence: GLYMA04G08400.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ24293 (Selaginella moellendorffii), 5'ss of exon 2
TGCCGCCAAAGATGACATTGATTCTGAGGA---GTATGAAACTCATGCCACTGTTTTGGATAAGTTGTTGGCATGGGAGAAGAAACTTTATGAAGAGGTCAAGgtaggtgtcaatgtccatgatcttgttgcctttgtcattatgttttttgttttctattcttggtagagtattaagactatctattcagttcaattttgat
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---CAGTGGATTTGACATTGAGGCTGGTGGCATGTCCGGGAGTCACGCTGGAACTTTGGATCGACTTTACGCATGGGAGAAGAAATTGTATGAAGAGGTCAAGgtag-tgcttctacttccggtttcttcga-tctggaactaagctctt-attctctgtgcttttcttcttctcag--------------------------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|19054132|gb|BM732799.1|BM732799EST: TTTTGGATAAGTTGTTGGCATGGGAGAAGAAACTTTATGAAGAGGTCAAG CAAGGTGAGCTTATGAAGTTTGAATATCAGAGAAAAGTTGCAATTCTAAAC
genomic: TTTTGGATAAGTTGTTGGCATGGGAGAAGAAACTTTATGAAGAGGTCAAGgtaggtgtca ... ttgtcaacagCAAGGTGAGCTTATGAAGTTTGAATATCAGAGAAAAGTTGCAATTCTAAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCCGCCAAAGATGACATTGATTCTGAGGAGTATGAAACTCATGCCACTGTTTTGGATAAGTTGTTGGCATGGGAGAAGAAACTTTATGAAGAGGTCAAGgtaggtgtcaatgtccatgatcttgttgcctttgtcattatgttttttgttttctattcttggtagagtattaagactatctattcagttcaattttgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG