Sequence
atgc intronic sequence ATGC exonic sequenceTGGTGAAATAGCTATTGGAACATCTCCTCAAAAGTTCACTGTCATTTTCGACACTGGCAGCTCTAATTTGTGGGTTCCATCATCTAAATGTACCTTCTCGgtgagtttttattttttaatttttttatatactaatctgttatttatgacttgtgaatatgtatcaatttaattccttatttattgcattttggttcag
Basic information
species | Glycine max |
transcript | GLYMA07G39240.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39240.2 (Glycine max), 5'ss of exon 2
lower sequence: AT1G11910.1 (Arabidopsis thaliana), 5'ss of exon 2
TGGTGAAATAGCTATTGGAACATCTCCTCAAAAGTTCACTGTCATTTTCGACACTGGCAGCTCTAATTTGTGGGTTCCATCATCTAAATGTACCTTCTCGgtgagtttttattttttaatttttttatatactaatctgttatttatg-acttgtgaatatgtatc-aatttaattccttatttattgcattttggttcag
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TGGTGAGATCGCCATTGGTACTCCACCTCAGAAGTTCACTGTGGTTTTTGACACTGGGAGCTCTAACCTCTGGGTGCCATCATCAAAATGCTATTTCTCAgtaag---caacatttggactattgt---tgttag-ctgtggttgagatacttttgagtagaaaactaattgtgttctatctcttttgcag----------
upper sequence: GLYMA07G39240.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv10s0116g01210.t01 (Vitis vinifera), 5'ss of exon 2
TGGTGAAATAGCTATTGGAACATCTCCTCAAAAGTTCACTGTCATTTTCGACACTGGCAGCTCTAATTTGTGGGTTCCATCATCTAAATGTACCTTCTCGgtgagtttttatttttt-----aatttttttatatactaat-------ctgttatttatgacttgtgaatatgtatcaatttaatt--------ccttatttattgcattttggttcag
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TGGTGAAATTGGTATTGGTACTCCCCCTCAAACGTTCACTGTAATCTTTGACACTGGTAGCTCAAACCTGTGGGTTCCATCATCCAAGTGCTATTTCTCGgtgagcttccatatttctgtggaatgtgacaatatgttagtgaacatttttttttccatttcaagttggttggaagcaagagaatcatcatgtgtttgaattttgtcattttggtgcag
upper sequence: GLYMA07G39240.2 (Glycine max), 5'ss of exon 2
lower sequence: PP1S99_158V6.1 (Physcomitrella patens), 5'ss of exon 1
TGGTGAAATAGCTATTGGAACATCTCCTCAAAAGTTCACTGTCATTTTCGACACTGGCAGCTCTAATTTGTGGGTTCCATCATCTAAATGTACCTTCTCGgtgagtttttattttttaatttttttatatactaatctgttatttatgacttgtgaatatgtatcaatttaattccttatttattgcattttggttcag--
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TGGGGTGATTGAGATCGGGACCCCAAAGCAAGAGTTCACTGTGGTTTTCGATACCGGCAGCTCGAATTTGTGGGTTCCGTCGGCGAAGTGCTACCTCTCGgtatggcagtatttcatcgctacaatttcgctcaattgccgatttctgttcttctcaccgatttca-tggaagtgttaaccacatatttcgtcggctagca
upper sequence: GLYMA07G39240.2 (Glycine max), 5'ss of exon 2
lower sequence: EFJ36863 (Selaginella moellendorffii), 5'ss of exon 1
TGGTGAAATAGCTATTGGAACATCTCCTCAAAAGTTCACTGTCATTTTCGACACTGGCAGCTCTAATTTGTGGGTTCCATCATCTAAATGTACCTTCTCGgtgagtttttattttttaatttttttatatactaatctgttatttatgacttgtgaatatgtatcaatttaattccttatttattgcattttggttcag
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CGGCGAGATCGGCATTGGGAGCCCGCCGCAGGAGTTCACTGTGATTTTTGACACTGGTAGCTCGAATCTCTGGGTTCCATCGGGAAAATGTGTTCTGTCGgtaagt-----atttccaggaattccacacgttttttcatggatt----cttgcag-------------------------------------------
upper sequence: GLYMA07G39240.2 (Glycine max), 5'ss of exon 2
lower sequence: EFJ27796 (Selaginella moellendorffii), 5'ss of exon 1
TGGTGAAATAGCTATTGGAACATCTCCTCAAAAGTTCACTGTCATTTTCGACACTGGCAGCTCTAATTTGTGGGTTCCATCATCTAAATGTACCTTCTCGgtgagtttttattttttaatttttttatatactaatctgttatttatgacttgtgaatatgtatcaatttaattccttatttattgcattttggttcag
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CGGCGAGATCGGCATTGGGAGCCCGCCGCAGGAGTTCACTGTGATTTTTGACACTGGTAGCTCGAATCTCTGGGTTCCATCGGGAAAATGTGTTCTGTCGgtaag------tattccaggaattccacacgttttttcatggatt----cttgcag-------------------------------------------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|193643832|gb|FK588625.1|FK588625EST: ACACTGGCAGCTCTAATTTGTGGGTTCCATCATCTAAATGTACCTTCTCG GTTGCATGCTACTTCCATGCTAAGTATAAGTCTAGCAAATCAAGTACTTAC
genomic: ACACTGGCAGCTCTAATTTGTGGGTTCCATCATCTAAATGTACCTTCTCGgtgagttttt ... tttggttcagGTTGCATGCTACTTCCATGCTAAGTATAAGTCTAGCAAATCAAGTACTTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTGAAATAGCTATTGGAACATCTCCTCAAAAGTTCACTGTCATTTTCGACACTGGCAGCTCTAATTTGTGGGTTCCATCATCTAAATGTACCTTCTCGgtgagtttttattttttaatttttttatatactaatctgttatttatgacttgtgaatatgtatcaatttaattccttatttattgcattttggttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC