Sequence
atgc intronic sequence ATGC exonic sequence...gcagttttgtggatgtactgatttccttttgtactttagataattgcttgaattaaggcttctgaatttaaggtttgaaatctgtactgttctatttcagGTTTGGAGATTTTTGATCAACTTTGCTGATGTTCTAGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
Basic information
species | Glycine max |
transcript | GLYMA07G32180.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G32180.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G28420.1 (Arabidopsis thaliana), 3'ss of exon 8
----------------------------------------------------gcagttttgtggatgtactgattt------ccttttgtactttagataattgcttgaattaaggcttctgaa-----tttaaggtttgaaatctgtactgttcta------tttcagGTTTGGAGATTTTTGATCAACTTTGCTGATGTTCTAGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
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gtatgttgtattgatctttaccctctctccggctgctacctctcatttaaaattagtattatgatcagaataacttggagaccaatttgaaatcagttggatttgtttttccgtgtattatgcacccttttgcagatttcacatatcttatgttgtgattgcttttcagGTTTGGAGATTCCTGATATCATTTTCTGATGTTCTTGACCTATGGCCTTTTACACTGGATGAGTTTATTCAGGCTTTTCATGACTAT
upper sequence: GLYMA07G32180.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0003g00290.t01 (Vitis vinifera), 3'ss of exon 8
--gcagttttgtggatgtactgatttccttttgtactttagataattgcttgaat-taaggcttctgaatttaaggtttgaaatctgtactgttctatttc-agGTTTGGAGATTTTTGATCAACTTTGCTGATGTTCTAGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
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tccttgtctcactgttatttaggtaaaagtgta-attttgtctaaaatcatgtatatagcatgtctgatcttgaggtttaaggac---actgttttttccccagGTCTGGAGATTTTTAATCACTTTTGCCGATGTGCTTCAGTTATGGCCTTTTACTCTTGATGAGTTTGTCCAAGCTTTTCATGACTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttgaattaaggcttctgaatttaaggtttgaaatctgtactgttctatttcagGTTTGGAGATTTTTGATCAACTTTGCTGATGTTCTAGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
ttctatttc CT-rich tract
tgaatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcagttttgtggatgtactgatttccttttgtactttagataattgcttgaattaaggcttctgaatttaaggtttgaaatctgtactgttctatttcagGTTTGGAGATTTTTGATCAACTTTGCTGATGTTCTAGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
- - - - gtggatg
- - - - - - - - - - - - ccttttg
- - - - - - - - - - - - - - - - - - - - - - tgcttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctgtac