Sequence
atgc intronic sequence ATGC exonic sequencegtgactcactcactttctttatctctattacttgccttttcaatatcaagaacgtgaatttgaaagtagctagcatttttttctttgctagGGTCTCTGTACTGGGGTCTTTATATTGTTTACTACTGGAGGAAAAAGCTCTCATATACTTGTCTTCAGTGAAGATCTTTTCTTCATTTATCTTCTTCCAC
Basic information
species | Glycine max |
transcript | GLYMA17G02560.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgactcactcactttctttatctctattacttgccttttcaatatcaagaacgtgaatttgaaagtagctagcatt---tttttctttgctagGGTCTCTGTACTGGGGTCTTTATATTGTTTACTACTGGAGGAAAAAGCTCTCATATACTTGTCTTCAGTGAAGATCTTTTCTTCATTTATCTTCTTCCAC
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-----------gtaagcttcgttttttttgttt--ccccaaatctttaaacacattgcttagaaacattctaaatttggattacgcaaaaatagGGTTCGTGTACTGGGATTGTGATCTTGCTTATAAGTGGAGGCAAAAGCTCAAGGATTCTTGTGTTTAGTGAAGATCTCTTCTTTATTTATCTTCTTCCAC
upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 2
gtgactcactcactttctttatctctattacttgccttttcaatatcaagaacgtgaatttgaaagtagctagcatttttttctttgctagGGTCTCTGTACTGGGGTCTTTATATTGTTTACTACTGGAGGAAAAAGCTCTCATATACTTGTCTTCAGTGAAGATCTTTTCTTCATTTATCTTCTTCCAC
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gtgagt---tttgtatatttatagcatttgatagacagttcggcctggtttacagggaattgatgccaaactttgtgtggattgattgcagGGTCTGTGCACAGGAATTATTATTCTACTAACCACCCGAGGAAAAAGCTCACATATTTTAGTATTCAGTGAAGATCTTTTCTTTATTTATCTTCTTCCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcaatatcaagaacgtgaatttgaaagtagctagcatttttttctttgctagGGTCTCTGTACTGGGGTCTTTATATTGTTTACTACTGGAGGAAAAAGCTCTCATATACTTGTCTTCAGTGAAGATCTTTTCTTCATTTATCTTCTTCCAC
catttttttctttgct CT-rich tract
atttttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgactcactcactttctttatctctattacttgccttttcaatatcaagaacgtgaatttgaaagtagctagcatttttttctttgctagGGTCTCTGTACTGGGGTCTTTATATTGTTTACTACTGGAGGAAAAAGCTCTCATATACTTGTCTTCAGTGAAGATCTTTTCTTCATTTATCTTCTTCCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA