Sequence
atgc intronic sequence ATGC exonic sequencegtacttctcatttacttgttatgcaatttttttcctatttatattatttttttcctttctctttttggttttatgataaatactttctaaattgtcacatccagATCAAACTTGGGTCACAATATTACTTCTATATGGAGACCCAAACTGCCCTTGCAGTTCCAGATGAAGATAACTGCATTGTGGTTTACAGTGCAATACAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 4
---------------------------------------gtacttct-----catttacttgttatgcaattttt---ttcctatttatattatt--tttttcctttctctttttggttttatgataaatactttctaa-------attgtcacatccagATCAAACTTGGGTCACAATATTACTTCTATATGGAGACCCAAACTGCCCTTGCAGTTCCAGATGAAGATAACTGCATTGTGGTTTACAGTGCAATACAAT
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gtacattgtttactttgcttcccctcttcctctcattccatacctttgtgaaccttggtttctgatacaatgtttaagtttgctcctgaataattaatgtttaattggttatgctgaacaaatactcattgttatctatcatattcaatgttaaatgcagTTGAAACTTGGGTCTCAATACTATTTCTATATGGAGACACAAACTGCACTTGCTGTTCCAGATGAAGACAATTGCATTACAGTTTACTCCTCAAACCAAT
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G44000.3 (Glycine max), 3'ss of exon 4
------------------------------------------------------------gtacttc--tcatttacttgttatgcaatttttttcctatttatattatttttttcc---tttctctttttggt---tttatgataaatactttctaaatt----gtcacatccagATCAAACTTGGGTCACAATATTACTTCTATATGGAGACCCAAACTGCCCTTGCAGTTCCAGATGAAGATAACTGCATTGTGGTTTACAGTGCAATACAAT
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gtacatgtaacatatccattgtttcctccttctactcctttcacatctttgtggccatctctactttagtttctgatgtgatgtttaagtttgtttctgaataatgaattttgatgagaatatattgatcaagcatattcattgtcatcatgtatcaaattcaatgtttaatgcagTTGACACTTGGGTCTCAATACTATTTCTACATGGAGACACAAGCTGCCCTTGCTGTACCCGACGAAGACAATTGCATTGTGGTTTACATTTCAAGTCAAA
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G20960.2 (Arabidopsis thaliana), 3'ss of exon 4
gtacttctcatttacttgttatgcaatttttttcctatttatattatttttt---tcctttctctttt-tggttttatgataaatactttctaaattgtcacatccagATCAAACTTGGGTCACAATATTACTTCTATATGGAGACCCAAACTGCCCTTGCAGTTCCAGATGAAGATAACTGCATTGTGGTTTACAGTGCAATACAAT
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----------------------gtggttcttttccaagacatatacacctctaaagccgtgctcttttctaaccatcatataaaatctttgtgatt------gtgtagATAAGTTTCGGGTCACAGTACTTCTTCTATATGGAGACACAAACAGCTCTTGCAGTGCCGGATGAAGACAACTGTATGGTGGTTTATAGCTCGACTCAAA
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G04580.1 (Arabidopsis thaliana), 3'ss of exon 4
-----gtacttctcatttacttgttatgcaatttttttcctatttatattatttttttcctttctctttttggttttatgataaatactttctaaattgtcacatccagATCAAACTTGGGTCACAATATTACTTCTATATGGAGACCCAAACTGCCCTTGCAGTTCCAGATGAAGATAACTGCATTGTGGTTTACAGTGCAATACAAT
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gtattaaaattctctttctctctct---taatctttgatatattaaaaaaaaataaaaaaaaatacattcttacactatgtt---tgctgttgattttggt-tatgcagTTGAGACTTGGGTCACAGTACTTCTTCTATATGGAGACACAAACAGCACTTGCCTTGCCAGATGAAGACAACTGTTTAGTGGTTTACAGTTCAACTCAAG
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G43600.1 (Arabidopsis thaliana), 3'ss of exon 3
gtacttctcatttacttgttatgcaatttttttcctatttatattatttttttcctttctctttttggttttatgataaatactttctaaattgtcacatccagATCAAACTTGGGTCACAATATTACTTCTATATGGAGACCCAAACTGCCCTTGCAGTTCCAGATGAAGATAACTGCATTGTGGTTTACAGTGCAATACAAT
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------------------gtatgtaatatagtccttttttactgtaaaaattagatatatat-----gttcaaccgttgtaacttttga---tgtgaaa--cagATAAGACTCGGATCGCAATACGTCTTCTACATGGAGACACAAACAGCTCTTGCAGTGGGAGATGAAGACAACTGCATTGTAGTCTATAGTTCAACACAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcctttctctttttggttttatgataaatactttctaaattgtcacatccagATCAAACTTGGGTCACAATATTACTTCTATATGGAGACCCAAACTGCCCTTGCAGTTCCAGATGAAGATAACTGCATTGTGGTTTACAGTGCAATACAAT
ttctaaa putative branch site (score: 2)
ttttatgataaatact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttctcatttacttgttatgcaatttttttcctatttatattatttttttcctttctctttttggttttatgataaatactttctaaattgtcacatccagATCAAACTTGGGTCACAATATTACTTCTATATGGAGACCCAAACTGCCCTTGCAGTTCCAGATGAAGATAACTGCATTGTGGTTTACAGTGCAATACAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA