Sequence
atgc intronic sequence ATGC exonic sequence...acttaatcaatatgaagaaaaaattggcagtttcatttaaattatgtagctttttttattccttttgtttgagatgttaacatttactttcacattacagATATGATCTCTTGCATAATGCCCATCTTAATCTAGAAGGATTGGATGAGCTTTTCAAGGTTGCTCAG
Basic information
species | Glycine max |
transcript | GLYMA18G49000.1 |
intron # | 23 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 23
lower sequence: LOC_Os03g48300.3 (Oryza sativa), 3'ss of exon 23
acttaatcaatatgaagaaaaaat-tggcagtttcatttaaattatgtagctttttttattccttttgt---ttgagatgttaacatttactttcacattacagATATGATCTCTTGCATAATGCCCATCTTAATCTAGAAGGATTGGATGAGCTTTTCAAGGTTGCTCAG---------------------------------
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----cattattcttccttatatatctaatgtacttatttgaattatgaaagatcatttacatctgtcatgaaccgcacaatctaagtgctgaattacattgcagATATGACCTCCTGCATAATGCACATCTTAACCTTGAAGGTTTGGAAGAGCTTTTCAAAGTTGCTCAAGTAAGGAACCTTAACGTTCTGTACTTCCATTTG
upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 23
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 23
acttaatcaatatgaagaaaaaat-tggcagtttcatttaaattatgtagctttttttattccttttgt---ttgagatgttaacatttactttcacattacagATATGATCTCTTGCATAATGCCCATCTTAATCTAGAAGGATTGGATGAGCTTTTCAAGGTTGCTCAG
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----cattattcttccttatatatctaatgtacttatttgaattatgaaagatcatttacatctgtcatgaaccgcacaatctaagtgctgaattacattgcagATATGACCTCCTGCATAATGCACATCTTAACCTTGAAGGTTTGGAAGAGCTTTTCAAAGTTGCTCAA
upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 23
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 23
acttaatcaatatgaagaaaaaattggcagtttcatttaaattatgtagctttttttattccttttgtttgagatgttaacattta--ctttcacattacagATATGATCTCTTGCATAATGCCCATCTTAATCTAGAAGGATTGGATGAGCTTTTCAAGGTTGCTCAG
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-agtgttctattaacaaaaaagctccttgctcttatatgagtccttta-tgttctatgctaacattgcttgtgcttttgattgttgacctgccaattcacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtagctttttttattccttttgtttgagatgttaacatttactttcacattacagATATGATCTCTTGCATAATGCCCATCTTAATCTAGAAGGATTGGATGAGCTTTTCAAGGTTGCTCAG
tgttaac putative branch site (score: 2)
tttactttc CT-rich tract
tttttttattcctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acttaatcaatatgaagaaaaaattggcagtttcatttaaattatgtagctttttttattccttttgtttgagatgttaacatttactttcacattacagATATGATCTCTTGCATAATGCCCATCTTAATCTAGAAGGATTGGATGAGCTTTTCAAGGTTGCTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - tatgaag
- - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - tatgtag