Sequence
atgc intronic sequence ATGC exonic sequence...tcctacttagtgccaatggcatcatcatcattttgcatgtcttgttggcctttcatatatgaggcgacatgggtttgaaaataaagttacatgtttgcagGTTCTTTTAAGCTATGGAACATACACGAATTTGGAACTTCTTGAACACTATGGGTTTCTTTTAGATGAAAACCCAAATGATAAGGCTTTCATTCCCTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0079g00650.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G092131_T01 (Zea mays), 3'ss of exon 5
--tcctacttagtgccaatggcatcatcatcattttgcatgtcttgttggcctttcatatatgaggcgacatgggtttgaaaataaagttacatgtttgcagGTTCTTTTAAGCTATGGAACATACACGAATTTGGAACTTCTTGAACACTATGGGTTTCTTTTAGATGAAAACCCAAATGATAAGGCTTTCATTCCCTTGG
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gtttgttcttagtttcacaaatataa-cattattttgtctttctt-ttgacatctcagtt---------------tttttatacacatttcattttctacagGTCCTCCTTGCTTATGGAACATACACAAACCTGGAACTCCTTGAACACTATGGCTTTCTTTTGGGTGAGAACCCCAACGAGAAAACTTTCATCGAGTTGG
upper sequence: Vv04s0079g00650.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G39060.2 (Glycine max), 3'ss of exon 4
tcctacttagtgccaat-ggcatcatcatcattttgcatgtcttgttggccttt----catatatgaggcgacatgggtttgaaaataaagttacatgtttgcagGTTCTTTTAAGCTATGGAACATACACGAATTTGGAACTTCTTGAACACTATGGGTTTCTTTTAGATGAAAACCCAAATGATAAGGCTTTCATTCCCTTGG
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----atttccaatagataggggtcacaagtacaatgcctgttttcactctcttcatcccattgtctagaaaatagagaattactaattaccttgttt-tcaccagGTTCTATTATGCTATGGAACTTACACAAATTTGGAGCTTCTTGAACACTATGGGTTTCTCCTACAAGAAAATCCAAATGACAAAGTTTTTATCCCTTTGG
upper sequence: Vv04s0079g00650.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G40730.1 (Glycine max), 3'ss of exon 5
tcctacttagtgccaatg-gcatcatcatcattttgcatgtcttg--ttggcctttcatatatgaggcgacatgggtttgaaaataaagttacatgtttgcagGTTCTTTTAAGCTATGGAACATACACGAATTTGGAACTTCTTGAACACTATGGGTTTCTTTTAGATGAAAACCCAAATGATAAGGCTTTCATTCCCTTGG
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--ttgaatattttcaatatgggtcacaagttccattcctgttatcactcttcattctattgtttagaaaatagggaattactaattaccttgttt-tcaccagGTTCTATTATGCTATGGAATTTACACAAATTTGGAGCTTGTTGAACACTATGGATTTCTCCTACAAGAAAATCCAAATGACAAAGTTTTTATCCCTTTGG
upper sequence: Vv04s0079g00650.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G17240.1 (Arabidopsis thaliana), 3'ss of exon 5
--------tcctacttagtgccaatggcatcatcatcattttgcatgtcttgttggcctttcatatatgaggcgacatgggtttgaaaataaagttacatgtttgcagGTTCTTTTAAGCTATGGAACATACACGAATTTGGAACTTCTTGAACACTATGGGTTTCTTTTAGATGAAAACCCAAATGATAAGGCTTTCATTCCCTTGG
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gtacaagtcctcaactagcttttgttacagctgcgaaacta---atgaagcggaagcacaacgtagaaaatatactgaatggtgaggattgtatttgtgggt--gtagGTTCTTCTATGTTATGGGACTTACACGAATCTAGAGCTTCTTGAGCACTATGGGTTTATGTTAGAAGAGAACTCAAATGACAAGGTCTTCATTCCTCTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggcctttcatatatgaggcgacatgggtttgaaaataaagttacatgtttgcagGTTCTTTTAAGCTATGGAACATACACGAATTTGGAACTTCTTGAACACTATGGGTTTCTTTTAGATGAAAACCCAAATGATAAGGCTTTCATTCCCTTGG
tttgaaaataaagtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcctacttagtgccaatggcatcatcatcattttgcatgtcttgttggcctttcatatatgaggcgacatgggtttgaaaataaagttacatgtttgcagGTTCTTTTAAGCTATGGAACATACACGAATTTGGAACTTCTTGAACACTATGGGTTTCTTTTAGATGAAAACCCAAATGATAAGGCTTTCATTCCCTTGG
-cctactt
- - - - - - - aatggca
- - - - - - - - - -catcatc
- - - - - - - - - - - - - - - - - gcatgtc
- - - - - - - - - - - - - - - - - - - - -ttgttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataa