Sequence
atgc intronic sequence ATGC exonic sequence...cttgttttctgttaattttctttctcttcttcctagtcaaagaatatgaaccacattaagctcttgtctgtgcttaaatgttcatgcaaaatttgtacagGGGCATCTTTGGTTATCAATACTTCATGGAAAAATCCATCAGGTGACTGGCATGTGGGTTATAAATTGGTTTGTGAGCTCTTTACAGAAAATTTGACTTC
Basic information
species | Glycine max |
transcript | GLYMA20G29920.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G29920.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0029g00990.t01 (Vitis vinifera), 3'ss of exon 4
cttgttttctgttaattttctttctcttcttcctagtcaaagaatatgaaccacattaagctcttgtctgtgc---ttaaatgttcatgcaaaatttgta-cagGGGCATCTTTGGTTATCAATACTTCATGGAAAAATCCATCAGGTGACTGGCATGTGGGTTATAAATTGGTTTGTGAGCTCTTTACAGAAAATTTGACTTC
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-taaattaatattattttgaattattatgcattaa---aaagattattatttttgtatgttcctcacactcacattctgtgcttttatcctaaatttgtaatagGGGCATCTCTGGTTGTAAATTCTTCATGGAAGAACCCTTCTGGGGAGTGGCATGTGGGTTATAAAGTCGTATACGAGCTTTGTACAGACACATTGACTTC
upper sequence: GLYMA20G29920.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0050g00490.t01 (Vitis vinifera), 3'ss of exon 3
cttgttttctgttaattttctttctcttc-ttcctagtca--aagaatatgaacc--acattaagctcttgtctgtgcttaaatgttcatgcaaaatttgta-cagGGGCATCTTTGGTTATCAATACTTCATGGAAAAATCCATCAGGTGACTGGCATGTGGGTTATAAATTGGTTTGTGAGCTCTTTACAGAAAATTTGACTTC
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------tgaaattaatattatttggatttattattgattataaagattattatttttgtatgttcctcacacacattctctgcttttatcataaaatttgtaatagGGGCAACTCTGGTTGTAAATTCTTCGTGGAAGAACCCTTCTGGGGAGTGGCATGTGGGTTATAAATTGGTATATGAGCTTTTTACAGACACATTGACTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgaaccacattaagctcttgtctgtgcttaaatgttcatgcaaaatttgtacagGGGCATCTTTGGTTATCAATACTTCATGGAAAAATCCATCAGGTGACTGGCATGTGGGTTATAAATTGGTTTGTGAGCTCTTTACAGAAAATTTGACTTC
aaaatttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgttttctgttaattttctttctcttcttcctagtcaaagaatatgaaccacattaagctcttgtctgtgcttaaatgttcatgcaaaatttgtacagGGGCATCTTTGGTTATCAATACTTCATGGAAAAATCCATCAGGTGACTGGCATGTGGGTTATAAATTGGTTTGTGAGCTCTTTACAGAAAATTTGACTTC
- - - ttctgtt
- - - - - - - - - - - - - ttcttcc
- - - - - - - - - - - - - - - - - - - - - - - - aaccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgctta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgca