Sequence
atgc intronic sequence ATGC exonic sequence...atgattatacattgtttaggattaaaggcctggtatgattttcttgtcatgtatagctttctgtttgtcttgacttctcttttttgttttttgactccagCCAACGTCCAAATTAATTAAAGAAATTGCAGTGTTAGAGTTAGAAGTTATGCATTTGGAACAATATCTTCTCTCCTTGTATCGTAAAGCATTTGATCAAC
Basic information
species | Glycine max |
transcript | GLYMA16G25820.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G25820.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G23700.1 (Arabidopsis thaliana), 3'ss of exon 4
atgattatacattgtttaggattaaaggcctggtatgattttcttgtcatgtatagctttctgtttgtcttgacttctcttttttgttttttgactccagCCAACGTCCAAATTAATTAAAGAAATTGCAGTGTTAGAGTTAGAAGTTATGCATTTGGAACAATATCTTCTCTCCTTGTATCGTAAAGCATTTGATCAAC
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gtaaagaatcggtttcttatgtaaaaggac-gacacaatgttgatgt--tgtgcagctta------gtcatgaatggt--tttatattctctagc---agCCTCCAACAGAATTGATCAAGGAAATCGCGGTGTTGGAGTTAGAAGTTTCTCATTTGGAACAGTACCTTCTATCTTTGTATCGTAAAGCGTTTGATCAAC
upper sequence: GLYMA16G25820.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0207g00120.t01 (Vitis vinifera), 3'ss of exon 6
atgattatacattgtttaggattaaaggcctggtatgattttcttgtcatgtatagctttctgtttgtcttgacttctcttttttgttttttgactccagCCAACGTCCAAATTAATTAAAGAAATTGCAGTGTTAGAGTTAGAAGTTATGCATTTGGAACAATATCTTCTCTCCTTGTATCGTAAAGCATTTGATCAAC
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ctttgtttttttagtcttaaactatggtattgacttgttttgcttcatcaccattatttctttgtggttatattctaacattgcttttattgcactccagCCTGCTATGGAACTAATTAAGGAAATTGCAGTGTTAGAATTGGAAGTTGTGCATTTGGAACAGTATCTTCTTTCACTGTACCGGAAAGCATTTGATCAAC
upper sequence: GLYMA16G25820.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0207g00150.t01 (Vitis vinifera), 3'ss of exon 3
-atgattatacattgtttaggattaaaggcctggtatgattttcttgtcatgtatagctttctgtttgtcttgacttctcttttttgttttttgactccagCCAACGTCCAAATTAATTAAAGAAATTGCAGTGTTAGAGTTAGAAGTTATGCATTTGGAACAATATCTTCTCTCCTTGTATCGTAAAGCATTTGATCAAC
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ctttgttttttaa-gtcttaaactatggtattgacttgttttgcttcatcaccattatttctttgtggttatattctaactttgcttttattgcactccagCCTGCTATGGAACTAATTAAGGAAATTGCAGTGTTAGAATTGGAAGTTGTGCATTTGGAACAGTATCTTCTTTCACTGTACCGGAAAGCATTTGATCAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcatgtatagctttctgtttgtcttgacttctcttttttgttttttgactccagCCAACGTCCAAATTAATTAAAGAAATTGCAGTGTTAGAGTTAGAAGTTATGCATTTGGAACAATATCTTCTCTCCTTGTATCGTAAAGCATTTGATCAAC
ttttgac putative branch site (score: 3)
ctttctgtttgtcttg CT-rich tract
tcttttttgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgattatacattgtttaggattaaaggcctggtatgattttcttgtcatgtatagctttctgtttgtcttgacttctcttttttgttttttgactccagCCAACGTCCAAATTAATTAAAGAAATTGCAGTGTTAGAGTTAGAAGTTATGCATTTGGAACAATATCTTCTCTCCTTGTATCGTAAAGCATTTGATCAAC
- - - - - - - - - - - - - - - -ggtatga
- - - - - - - - - - - - - - - - - - - - - - - -catgtat