Sequence
atgc intronic sequence ATGC exonic sequence...agttctttgctgtttaatgtttttttgagctggatgagttcttttaattgttttttattctatgaaattgaatccatcctctcatttaatgttgctttagGAGTGTGCTTTCCAATGGGGAAGGGTATGTATCGCGTGGTTCATATACCCGAAGATGAAGCGGTCCTTTTGAACTCTAGGGAAAAGGCACCTTATCTTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g01210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os11g10420.2 (Oryza sativa), 3'ss of exon 3
--------agttctttgctgtttaatgtttttttgagctggatgagttcttttaattgttttttattctatgaaattgaatccatcctctcatttaatgttgctttagGAGTGTGCTTTCCAATGGGGAAGGGTATGTATCGCGTGGTTCATATACCCGAAGATGAAGCGGTCCTTTTGAACTCTAGGGAAAAGGCACCTTATCTTAT
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aaacatatgctaccttttggattaagcatcaatcactgaagatgaacgc----agtagctaaatgtcccctgaaattcttttcgtctgccttctttttgca----cagGAGTATGCTTTCCGATGGGAAAGGGCATATATCGAGTGGTTCATATACCTGAAGATGAAGCTGTTCTTCTTAACTCCAGGGAAAAAGCTCCTTATCTTAT
upper sequence: Vv04s0044g01210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G16620.1 (Glycine max), 3'ss of exon 3
agttctttgc-tgtttaatgtttttttgagctggatgagttcttttaattgttttttattctatgaaattgaatccatcctctcatttaatgttgctt-tagGAGTGTGCTTTCCAATGGGGAAGGGTATGTATCGCGTGGTTCATATACCCGAAGATGAAGCGGTCCTTTTGAACTCTAGGGAAAAGGCACCTTATCTTAT
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-atcctttacatgtgtgctgaacaccaattatgttgctgcattttccattgcttat-gctaagtagatttcacttatctccctgcttctatatgaattatagGAGTTTGTTTTCCATTGGGAAAGGGCATGTATCGTGTGCTTAATATACCTGAAGATGAAGCTGTTCTCTTGAATTCTAGGGAGAAGGCACCTTACCTGAT
upper sequence: Vv04s0044g01210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G32460.1 (Glycine max), 3'ss of exon 3
--agttctttgctgtttaatgtttttttgagctggatgagttcttttaattgttttttattctatgaaattgaatccatcct-ctcatttaatgttgctttagGAGTGTGCTTTCCAATGGGGAAGGGTATGTATCGCGTGGTTCATATACCCGAAGATGAAGCGGTCCTTTTGAACTCTAGGGAAAAGGCACCTTATCTTAT
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tgaacgccgattaagttgctgcattttcc-gttgcttatgctaagtagatttcacttatctccctgcttctatatgaatcttgcttgttatatatt--tctagGAGTTTGTTTTCCATTGGGAAAGGGCATGTATTGTGTGCTTAATATACCTGAAGATGAAGCTGTTCTCTTGAATTCTAGGGAGAAGGCACCTTACCTGAT
upper sequence: Vv04s0044g01210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G15820.1 (Glycine max), 3'ss of exon 4
--agttctttgctgtttaatgt-ttttttgagctggatgagttcttttaattgttttttattct-atgaaattgaatccatcctctcatttaatgttgctttagGAGTGTGCTTTCCAATGGGGAAGGGTATGTATCGCGTGGTTCATATACCCGAAGATGAAGCGGTCCTTTTGAACTCTAGGGAAAAGGCACCTTATCTTAT
|| | |||| | || || | ||| | | | ||| | | | ||||| || ||| | || || | | ||| | | ||||||| || ||||| |||| ||||| ||||| || ||| |||||||||| ||||||||||| || || ||||| |||||||| ||||| ||||| || ||
gtgtatcaattatgttcactgcattccctttgctagtt---tgcttgcagctttcatttatcctcatgcttgtatatgaatgttgtt-tttcctatattcctagGAGTTTGTTTTCCGTTGGGAAAGGGCATGTACCGTGTGCTTCATATACCTGAAGATGAAGCTGTTCTCTTGAATTCTAGGGAGAAGGCGCCTTACCTGAT
upper sequence: Vv04s0044g01210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G39150.1 (Glycine max), 3'ss of exon 4
-------agttctttgctgtttaatgtttttttgagctggatgagttcttttaattgttttttattctatgaaattgaatccatcctctcatttaatgttgctttagGAGTGTGCTTTCCAATGGGGAAGGGTATGTATCGCGTGGTTCATATACCCGAAGATGAAGCGGTCCTTTTGAACTCTAGGGAAAAGGCACCTTATCTTAT
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gtgcatcaattttgttcactgcattccctttgctagtttgcttgctgctttcatttatcctc-atgct-tgtatatgaat--gttgttttttcta-tattcct--agGAGTTTGTTTTCCGTTGGGAAAGGGCATGTACTGTGTGCTTCATATACCTGAAGATGAAGCTGTTCTCTTGAATTCTAGGGAGAAGGCACCCTACCTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattgttttttattctatgaaattgaatccatcctctcatttaatgttgctttagGAGTGTGCTTTCCAATGGGGAAGGGTATGTATCGCGTGGTTCATATACCCGAAGATGAAGCGGTCCTTTTGAACTCTAGGGAAAAGGCACCTTATCTTAT
ttgcttt CT-rich tract
ttttttattctatgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttctttgctgtttaatgtttttttgagctggatgagttcttttaattgttttttattctatgaaattgaatccatcctctcatttaatgttgctttagGAGTGTGCTTTCCAATGGGGAAGGGTATGTATCGCGTGGTTCATATACCCGAAGATGAAGCGGTCCTTTTGAACTCTAGGGAAAAGGCACCTTATCTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - -tgctgtt
- - - - - - - - - - - - - gagctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattga