Sequence
atgc intronic sequence ATGC exonic sequencegttaggaaacagctcttcagctaggtgttctaatttctatcttctgttatgccattatgttgtatctctcacagtctcactattaagttgtcttcagATCAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAACGGGGCAGTAGCACACGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
Basic information
species | Glycine max |
transcript | GLYMA03G33440.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G33440.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0040g03220.t01 (Vitis vinifera), 3'ss of exon 2
-----gttaggaaacagctcttcagctaggtgttctaatttctatcttctgttatgccattatgt-tgtatctctcacagtctcactattaagttgtcttcagATCAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAACGGGGCAGTAGCACACGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
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tgctctgtgtgctgtaatttgttattaagtaaagtttggctctattgttcatggtggtttcatttatttagtttttttatactgagtatttgcat---tgcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
upper sequence: GLYMA03G33440.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ36434 (Selaginella moellendorffii), 3'ss of exon 2
gttaggaaacagctcttcagctaggtgttctaatttctatcttctgtt-atgccattatgttgtatctctcacagtctcactattaagttgtcttcagATCAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAACGGGGCAGTAGCACACGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
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---------------------------gtgaaattcctttgctttattcatgttcttcgcggggatttagttcg---ttagtgtgtgacaatttccagATTAGAAGTCATGCCCAGAAGTATTTTTTGAAAGTCCAGAAGAATGGAACTGGAGAACACGTTCCTCCTCCACGGCCGAAGCGTAAATCTGCTCAACCAT
upper sequence: GLYMA03G33440.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ04991 (Selaginella moellendorffii), 3'ss of exon 2
gttaggaaacagctcttcagctaggtgttctaatttctatcttctgtt-atgccattatgttgtatctctcacagtctcactattaagttgtcttcagATCAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAACGGGGCAGTAGCACACGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
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---------------------------gtgaaattcctttgctttattcatgttcttcgcggggatttagttcg---ttagtgtgtgacaatttccagATTAGAAGTCATGCCCAGAAGTATTTTTTGAAAGTCCAGAAGAATGGAACTGGAGAACACGTTCCTCCTCCACGGCCGAAACGTAAATCTGCTCAACCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgttatgccattatgttgtatctctcacagtctcactattaagttgtcttcagATCAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAACGGGGCAGTAGCACACGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
gtctcac putative branch site (score: 3)
ttgtcttc putative PPT
tattaagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaggaaacagctcttcagctaggtgttctaatttctatcttctgttatgccattatgttgtatctctcacagtctcactattaagttgtcttcagATCAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAACGGGGCAGTAGCACACGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG