Sequence
atgc intronic sequence ATGC exonic sequencegtgagtacaaattaatgcaaatttgttgctgcctttgaaccactccatatgatgatgatcaatgcctgaatttgataatctgttttgtagGTTATATTGAGCCTGTGATGGTAATTCTTCATGAGAGGGAGCTTACTTGGGCTGGGCGTGTCTCATGGAAGCATCATACTTGCATGATTTCTGCGCTTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g01860.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g18010.3 (Oryza sativa), 3'ss of exon 3
-------gtgagtacaaatta---atgcaaatttgttgctgcctttgaaccactccatatgatgatgatcaatgcctgaatttgataatctgttttgtagGTTATATTGAGCCTGTGATGGTAATTCTTCATGAGAGGGAGCTTACTTGGGCTGGGCGTGTCTCATGGAAGCATCATACTTGCATGATTTCTGCGCTTAG
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tctccttttgcattccatttatatattcatcactagtgctacaactatccaaatgtgaaaccttgctattcatgctgttttccatttatgatttctttagGTTATATTGAGCCTGTGTTGGTCATACTTCATGAGCAAGAGCCTACATGGGCTGGGCGTATCTTATCAAAGCACCATACATGCATGATATCTGCATTTAG
upper sequence: Vv16s0022g01860.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g18010.1 (Oryza sativa), 3'ss of exon 4
---------------------------------gtgagtacaaatta---atgcaaatttgttgctgcctttgaaccactccatatgatgatgatcaatgcctgaatttgataatctgttttgtagGTTATATTGAGCCTGTGATGGTAATTCTTCATGAGAGGGAGCTTACTTGGGCTGGGCGTGTCTCATGGAAGCATCATACTTGCATGATTTCTGCGCTTAG
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gtgctggatctgcatatcatgaggagtctccttttgcattccatttatatattcatcactagtgctacaactatccaaatgtgaaaccttgctattcatgctgttttccatttatgatttctttagGTTATATTGAGCCTGTGTTGGTCATACTTCATGAGCAAGAGCCTACATGGGCTGGGCGTATCTTATCAAAGCACCATACATGCATGATATCTGCATTTAG
upper sequence: Vv16s0022g01860.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G455115_T01 (Zea mays), 3'ss of exon 4
---------gtgagtacaaatt---aatgcaaatttgttgctgcctttg-aaccactccatatgatgatgatcaatgcctgaatttgataatctgttttgtagGTTATATTGAGCCTGTGATGGTAATTCTTCATGAGAGGGAGCTTACTTGGGCTGGGCGTGTCTCATGGAAGCATCATACTTGCATGATTTCTGCGCTTAG
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agttcctttgtttccacacattttgcatacatatttgttaatattggtacaaacttaccatattcagaactcagccatttccattttatgatgccttc---agGTTATATTGAGCCTGTGTTGGTCATACTTCATGAGCGAGAGCCTACATGGGCTGGGCGTATCTCATCGAAGAGCCAAACATGCATGCTATCTGCGTTTAG
upper sequence: Vv16s0022g01860.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G32890.1 (Glycine max), 3'ss of exon 4
gtgagtacaaatta-atgcaaatttgttgctgcctttgaac---cactccatatgatgatgatcaatgcctgaattt-----------gataatctgttttgtagGTTATATTGAGCCTGTGATGGTAATTCTTCATGAGAGGGAGCTTACTTGGGCTGGGCGTGTCTCATGGAAGCATCATACTTGCATGATTTCTGCGCTTAG
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----gcattgcttgtgtatttattttct-ttgcctgaaaacatataatatacataagtttgttttattttttattttacgagtatcgggttaacttgttgtatagGCTATATTGAACCTGTAATGGTGATTTTGCATGAACGTGAACTCACTTGGGCCGGGCGTGTCTCATGGAAGCATCATACTTGCATGATATCAGCACTTAG
upper sequence: Vv16s0022g01860.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G28030.1 (Glycine max), 3'ss of exon 4
gtgagtacaaattaatgcaaatttgttgctgcctttgaaccactccatatgatgatgatcaatgcctgaatttgata------------atctgttttgtagGTTATATTGAGCCTGTGATGGTAATTCTTCATGAGAGGGAGCTTACTTGGGCTGGGCGTGTCTCATGGAAGCATCATACTTGCATGATTTCTGCGCTTAG
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--cattgcttgtttatctattttctttgcctgaaaacatataatttacattagtttgtgttatttttgtatttaacgagtattgggtttacttgttgtatagGCTATATTGAACCTGTAATGGTGATTTTGCATGAACGTGAGCTCACTTGGGCTGGGCGTGTCTCATGGACGCATCACACTTGCATGATATCAGCACTTAG
upper sequence: Vv16s0022g01860.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G51660.1 (Arabidopsis thaliana), 3'ss of exon 4
--gtgagtacaaattaatgcaaatttgttgct--gcctttgaaccactccatatgatgatgatc---aatgcctgaatttg-ataatctgttttgt--agGTTATATTGAGCCTGTGATGGTAATTCTTCATGAGAGGGAGCTTACTTGGGCTGGGCGTGTCTCATGGAAGCATCATACTTGCATGATTTCTGCGCTTAG
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tctgaaattttagatattctagttttcccagtaggcataaagaataaactaagtggtgcttcttttgattatgtgtttttgcatcctgtgtcttcttcagGTTATATTGAGCCTGTAATTGTCATCCTTCAGGAAGAAGAGCATACTTGGGCTGGGCGAGTTTCATGGAAGCACCATACTTGCGTGCTTTCTGCCCTTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaaccactccatatgatgatgatcaatgcctgaatttgataatctgttttgtagGTTATATTGAGCCTGTGATGGTAATTCTTCATGAGAGGGAGCTTACTTGGGCTGGGCGTGTCTCATGGAAGCATCATACTTGCATGATTTCTGCGCTTAG
atttgat putative branch site (score: 5)
tctgtttt putative PPT
aatttgataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtacaaattaatgcaaatttgttgctgcctttgaaccactccatatgatgatgatcaatgcctgaatttgataatctgttttgtagGTTATATTGAGCCTGTGATGGTAATTCTTCATGAGAGGGAGCTTACTTGGGCTGGGCGTGTCTCATGGAAGCATCATACTTGCATGATTTCTGCGCTTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG