Sequence
atgc intronic sequence ATGC exonic sequencegtttgtcaatttgaatccatcattgttggttttttaacctatggaaaatctgattatttttattgacttatttcccttattgagatacaccagACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 4
gtttgtcaatttga-atccatcattgttggttttttaacctatggaaaatctgattatttttattgacttatttcccttattgagatacaccagACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
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--------gtttgttgtctaacactttctcttcttaaa--tattattttgctgaacatgcatgt-gtttcatttccctaact-----acac-agGTGTGGAATTGCTTCTCTGATGGTGCCTGTACCAGGACTCTCCGCCGGCATTCTGATTACGTGATTTGTCTTGCTGCTGCTGAGAATAAT
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 4
-------gtttgtcaatttgaatccatcattgttggttttttaacctatggaa-aatctgattatttttattgacttatttcccttattgagatacaccagACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
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gtttgttgattgctagctgttttttattccaatcaatacttgttcttctgaaataataccagtacttacataattatttacaccttctttttatgtgtcagACATGGAATGCCCTGTCCTTTGGAACTTGTACTAGGACTCTCCGGCAACACTCTGACTATGTTACTTGCCTTGCAGCAGCTGAAAAAAAT
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G40440.1 (Glycine max), 3'ss of exon 4
gtttgtcaatttgaatccatcattgttggttttttaacctatggaaaatctgattatt-------tttattgacttatttcc--cttattgagatacaccagACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
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gtttgttgattgctagctgtttttttattcctatcaatacttggttcttctaaataataccagtacttacataattatttacaccttctttttatgtgttagACATGGAATGCCTTGTCCTTTGGAACCTGCACTAGGACTCTCCGGCAACACTCTGACTATGTTACTTGCCTCGCAGCAGCAGAAAAAAAT
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 4
gtttgtcaatttgaatccatcatt-gtt--ggtt--ttttaacctatggaaaatctgattatttttattgacttattt-cccttattgagatacaccagACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
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gtttgttgattgctagctgttttttgttccaatcaatccttgctcttcatcaataatacagtacttacacagttatttacacctttttaaatttgttagACATGGAATGCCTTGTCCTTTGGAACCTGTACTAGGACACTCCGACAACACTCTGACTATGTTACTTGCCTTGCAGCAGCAGGAAAAAAT
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G30050.1 (Glycine max), 3'ss of exon 3
----------------------------------gtttgtcaatttgaatccatcattgttggttttttaacctatggaaaatctgattatttttattgacttatttcccttattgaga---tacaccagACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
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gttcgttgactattgattagttgtagttgtaattaatcctcgctcttttcccgtgataac-ggtacgtcagtatcgattcaatttttccacccccttttgtttaacttggtggttgtatgtttgtgctagACATGGAATGCTTTGTCCACAGGAACATGTACTAGGACACTCCGTCAACACTCAGATTATGTTACTTGCCTTGCTGTGGCAGAAAAAAAT
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 4
gtttgtcaatttgaatccatcatt-gtt--ggtt--ttttaacctatggaaaatctgattatttttattgacttattt-cccttattgagatacaccagACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
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gtttgttgattgcaagctgttttttgttccaatcaatccttgctcttcatcaataacacagtacttacatagttatttacacctttttaaatttgttagACATGGAATGCCTTGTCCTTTGGAACCTGTACTAGAACACTCCGACAACACTTTGACTATGTTACTTGCCTTGCAGCAGCAGGAAAAAAT
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 4
gtttgtcaatttgaatccatcattg--ttggttttttaacctatggaaaatctgattatttttattgacttat-----ttcccttattgagatacacc-agACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
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gtttgtgaatttgtttcgctagccgaaccaatattttactttgttttgtttttgtaattccatattggtttctaaatgcggcttaattattttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCATTCTGACTATGTTACTTGTTTGGCAGTTGCGGCAAAAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctatggaaaatctgattatttttattgacttatttcccttattgagatacaccagACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
tattgac putative branch site (score: 2)
aaaatctgattatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtcaatttgaatccatcattgttggttttttaacctatggaaaatctgattatttttattgacttatttcccttattgagatacaccagACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG