Sequence
atgc intronic sequence ATGC exonic sequence...tgaaagaggttatttattggattttttttcaaactataagttatttagtgtatgtatccttgtaattgaacttctttgatatgttcgcaagttttaacagGCTTGGGAAGGGCGTGCTTATGACTACTGTATGGAAAACCTCAAGAATATGGGTTTCCCTATTGATGGACTTGCGTTTGATCCAGACCTG
Basic information
species | Glycine max |
transcript | GLYMA15G21240.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G21240.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g14810.2 (Oryza sativa), 3'ss of exon 3
tgaaagaggttatttattggattttttttcaaactataagttatttagtgtatgtatccttgtaa-ttg-aacttctttgatatgttcgcaagttttaacagGCTTGGGAAGGGCGTGCTTATGACTACTGTATGGAAAACCTCAAGAATATGGGTTTCCCTATTGATGGACTTGCGTTTGATCCAGACCTG
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tcacatcagacataaa--aaaacaacatgagtgctttgtgtccttccatatggtccttgtggtaaattgcagaaaaaccaaattgttgttacatctatgcagGCTTGGGAAGGGCGTGCTTATGATTATGGTATGGCCAATCTGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTG
upper sequence: GLYMA15G21240.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G48960.1 (Arabidopsis thaliana), 3'ss of exon 3
tgaaagaggttatttattggattttttttcaaactataagttatttagtgtatgtatccttgtaattgaacttctttgatatgttcgcaagttttaacagGCTTGGGAAGGGCGTGCTTATGACTACTGTATGGAAAACCTCAAGAATATGGGTTTCCCTATTGATGGACTTGCGTTTGATCCAGACCTG
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--------gtgagttctt----cctttctcagac-ataagt-aggaaacatttatgcacccatatttgatgctaatt--tatggtc------ttgttcagGCTTGGGAAGGAAAGGCTTATGACTATTGCATGGAAAATCTAAAGAGCATGGGTTTCCCTGTTGATGGACTTGCTTTTGATCCGGAACTG
upper sequence: GLYMA15G21240.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 3
-tgaaagaggttattta-ttggattttttttcaaactataagttatttagtgtatgtatccttgtaattgaacttctttgatatgttcgcaagtttta-acagGCTTGGGAAGGGCGTGCTTATGACTACTGTATGGAAAACCTCAAGAATATGGGTTTCCCTATTGATGGACTTGCGTTTGATCCAGACCTG
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cctatctgcttggtttagcttcatggataattgaaaaaggagttcctttgtccatttgaactggtga---gattattgacataggtttatgcccctggtgcagGCTTGGGAAGGACGGGCGTATGAATATTGTATGGACAACCTAAGGAACATGGGGTTTCCTGTGGATGGACTTGCATTTGACCCAAACTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtgtatgtatccttgtaattgaacttctttgatatgttcgcaagttttaacagGCTTGGGAAGGGCGTGCTTATGACTACTGTATGGAAAACCTCAAGAATATGGGTTTCCCTATTGATGGACTTGCGTTTGATCCAGACCTG
ctttgat putative branch site (score: 5)
aagttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaagaggttatttattggattttttttcaaactataagttatttagtgtatgtatccttgtaattgaacttctttgatatgttcgcaagttttaacagGCTTGGGAAGGGCGTGCTTATGACTACTGTATGGAAAACCTCAAGAATATGGGTTTCCCTATTGATGGACTTGCGTTTGATCCAGACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - tcaaact
- - - - - - - - - - - - - - - - - - - - - - - - tgtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttgta