Sequence
atgc intronic sequence ATGC exonic sequence...aagctgcatcttttcatttgccaagagcttggaaaaattgaatttgtcagaatgaaaattgccaaaggggtgtatgctaatgctagtgtcctttctacagGCAGCCATCCGGGATACCCTAGTACTTCCAAACTGTGAAAGTGTATGCATACCATGGATGTTAGCAGAAAAGGATGACTGGGTTCAACGTAATGTTGCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g58110.1 (Oryza sativa), 3'ss of exon 4
aagctgcatcttttcatttgccaagagcttggaaaaattgaatttgtcagaatgaaaattgccaaaggggtgtatgctaatgctagtgtcct-ttctacagGCAGCCATCCGGGATACCCTAGTACTTCCAAACTGTGAAAGTGTATGCATACCATGGATGTTAGCAGAAAAGGATGACTGGGTTCAACGTAATGTTGCAC
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-----gtag-tgaacacatcccatcctctt-------ctgagcttgttacttc-----tcttccaacctacatgttttaatcacacctttctgctgctcagGCTTCACTCCGTGACAGTTTGGTGCTCCCAAACTGTGAAAGTATTTCCATACCATTTATGTTGGCAGAAAAGGATGACTGGGTACCTCTCAAGGATGCAC
upper sequence: Vv16s0039g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G31790.1 (Glycine max), 3'ss of exon 6
aagctgcatcttttcatttgccaagagcttggaaaaattgaatttgtcagaatg---aaaattgccaaaggggtgtatgctaatgctagtgtcctttctacagGCAGCCATCCGGGATACCCTAGTACTTCCAAACTGTGAAAGTGTATGCATACCATGGATGTTAGCAGAAAAGGATGACTGGGTTCAACGTAATGTTGCAC
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-aactgcagcaca--gactgagaaatacgtatgaactttcatctctttagaaaagataagagcagctaatgcttgcaaactgaatttaattttgttcctgcagACAGGAGTTCGAGAAACTTTGGTGCTCCCAAATTGTGAAAGTTTATGCATTCCATGGATGTTAGCAGAAAAGGATGATTGGGTTCCTCGAACTGTTGCTC
upper sequence: Vv16s0039g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G28890.1 (Glycine max), 3'ss of exon 7
-aagctgcatcttttcatttgccaagagcttggaaaaatt--gaatttgtcagaatgaaaattgccaaaggggtgtatgctaatgctagtgtcctttctacagGCAGCCATCCGGGATACCCTAGTACTTCCAAACTGTGAAAGTGTATGCATACCATGGATGTTAGCAGAAAAGGATGACTGGGTTCAACGTAATGTTGCAC
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tattctagtactcaactgaagccctctcttttgtatctttaagaaatgattagaatatctttccctaaac---cctaaacttgattttatttttctcctgcagGCAGCGATCCGGGAAACTTTAGTGCTCCCAAATTGTGAAAGCATATGCATTCCATGGATGCTAGCCGAAAAGGATGATTGGGTTCCTAGGAGTGTCGCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcagaatgaaaattgccaaaggggtgtatgctaatgctagtgtcctttctacagGCAGCCATCCGGGATACCCTAGTACTTCCAAACTGTGAAAGTGTATGCATACCATGGATGTTAGCAGAAAAGGATGACTGGGTTCAACGTAATGTTGCAC
tgctaat putative branch site (score: 2)
tgtcctttct putative PPT
aatgaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagctgcatcttttcatttgccaagagcttggaaaaattgaatttgtcagaatgaaaattgccaaaggggtgtatgctaatgctagtgtcctttctacagGCAGCCATCCGGGATACCCTAGTACTTCCAAACTGTGAAAGTGTATGCATACCATGGATGTTAGCAGAAAAGGATGACTGGGTTCAACGTAATGTTGCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- -ctgcatc
- - - - - - - catttgc
- - - - - - - - - - - - - - - ggaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -atgaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgctag