Sequence
atgc intronic sequence ATGC exonic sequence...tacctacctatataaaaggaaaacaaattaaaacttttcatctctatttttaaaattttttatgttctttaacatattagtttgatgtttcactggacagGATGTTCCTTATAAACCACAAGAATATTTTGTTAAGACACGCAAATGTGAGCCAGATGCTAGTGCGAAAGTTGTGAAGATATGCGAGAGGCATGTATCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os09g35720.1 (Oryza sativa), 3'ss of exon 1
--------tacctacctatataaaaggaaaacaaattaaaacttttcatctctatttttaaaattttttatgttctttaacatattagtttgatgtttcactggacagGATGTTCCTTATAAACCACAAGAATATTTTGTTAAGACACGCAAATGTGAGCCAGATGCTAGTGCGAAAGTTGTGAAGATATGCGAGAGGCATGTATCTC
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tagaaagttctccttttttctgtttgtcaaatcactcta--ttaccaaactggacagatgttatcctttgtggtctgtaacatgtt--ttttgtgtatctt----cagGATGTTGCTTACAAACCTGAAGAAAAATTTGTGAAGACACGTAAATGTGAGCCTGAAGCTGGTGCGAACGTTGTCAAATCTTGTGAAAG-----------
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G412911_T01 (Zea mays), 3'ss of exon 2
tacctacctatataaaaggaaaacaaattaaaacttttcatctctatttttaaaatttttta-tgttctttaacatattagtttgatgtttcactggacagGATGTTCCTTATAAACCACAAGAATATTTTGTTAAGACACGCAAATGTGAGCCAGATGCTAGTGCGAAAGTTGTGAAGATATGCGAGAGGCATGTATCTC
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ggccattttggttcagatggttgcagtcctttttttactatttctcggaccagtgtattcaactattacttgatcctttcttctt-tctttgtctcttcagGATGTTGCTTACAAACCAGAGGAACAGTATGTTGAGACACGCAAATGTGAACCAGATGCTGGTTCTGATGTTGTTAGAGCTTGTGAAAG-----------
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G09670.1 (Glycine max), 3'ss of exon 2
--------tacctacctatataaaaggaaaacaaattaaaacttttcatctctatttttaaaattttttatgttctttaacatattagtttgatgtttcactggacagGATGTTCCTTATAAACCACAAGAATATTTTGTTAAGACACGCAAATGTGAGCCAGATGCTAGTGCGAAAGTTGTGAAGATATGCGAGAGGCATGTATCTC
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gttttggagaattattttttcaaagcaaattgtcgtaagaggattgcgtacacgtggatgtaatattttgtatgattaa--------gtttgaattactcgtttgcagGATGTTCCTTATAAACCTGAAGAGTATTATGTTAAGACACGCAAATGCGAGCCAGATGCTGGTGCAAATGTCGTGAAGATATGTGAAAGGCAAGCCAT--
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G02850.1 (Glycine max), 3'ss of exon 2
--------tacctacctatataaaaggaaaacaaattaaaacttttcatctctatttttaaaattttttatgttctttaacatattagtttgatgtttcactggacagGATGTTCCTTATAAACCACAAGAATATTTTGTTAAGACACGCAAATGTGAGCCAGATGCTAGTGCGAAAGTTGTGAAGATATGCGAGAGGCATGTATCTC
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gttttggagaattattttttcaaagcaaattgccataagaggattgcgtacacgtggatgtaatattttgtatgattaagtttgt--gttactcgttt------gcagGATGTTCCTTATAAACCTGAAGAGTATTATGTTAAGACACGCAAATGCGAGCCAGATGCTGGTGCAAATGTCGTGAAGATATGTGAAAGGCAAGCCAT-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttaaaattttttatgttctttaacatattagtttgatgtttcactggacagGATGTTCCTTATAAACCACAAGAATATTTTGTTAAGACACGCAAATGTGAGCCAGATGCTAGTGCGAAAGTTGTGAAGATATGCGAGAGGCATGTATCTC
tttcact CT-rich tract
taaaattttttatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacctacctatataaaaggaaaacaaattaaaacttttcatctctatttttaaaattttttatgttctttaacatattagtttgatgtttcactggacagGATGTTCCTTATAAACCACAAGAATATTTTGTTAAGACACGCAAATGTGAGCCAGATGCTAGTGCGAAAGTTGTGAAGATATGCGAGAGGCATGTATCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
-acctacc
- - - - - - -aaaagga
- - - - - - - - - - aaacaaa
- - - - - - - - - - - - - - -aaaactt
- - - - - - - - - - - - - - - - - - -tcatctc