Sequence
atgc intronic sequence ATGC exonic sequence...gattcctttgcataattgtttggtatttttcttttaatttagaatatacatatttcttgctcgtatgtttatttattaattcttctgttaatatgaatagGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G478212_T01 (Zea mays), 3'ss of exon 4
--------------gattcctttgcataattgtttggtatttttcttttaattt-agaatatacatattt------------cttgctcg---------tatgtttat----ttattaattcttctgttaatatgaat----agGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA
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gttcataagctataaaccctaatatatagtcctatcacaatttttttttagtttcagaagagttgccttcaaagcattagcgctggattgacataagaacatacccatgatattactgtgctctcagaaaaagtggttgtccagGTGATTACCTCACAAAGGCGCCCTCTAATCCTGGAGCTGGTGACGTACTAATGGGTTTCCTTGGGTCTGTGATCATATCATTTGCATTCTCAATGTTCAA
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G15800.1 (Glycine max), 3'ss of exon 4
gattcctttgcataattgtt------tggtatttttcttttaatttagaatatacatatttcttgctcgtatgtttatttattaattcttctgttaatatgaatagGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA
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---tgcacaatatggttcttctctcatgcaattcttttattaatcccatttcagcataatg---agccatatttgtttttgatgattcttctttctacattcatagGATATTACCTTACAAAGGCATCATCAAATCCTGGAGCTGGTGACATTTTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTTCCTTCTCTATGTTTAA
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G34440.1 (Glycine max), 3'ss of exon 3
gattcctttgcataattgtttggtatttttcttttaatttagaatatacatatt--tcttgctcgtatgtttatttattaattcttctgttaatatgaatagGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA
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atttagcttaggtgcaaatttatcaattgacggaca--ttaacatctgtgtagtgacttagctttgatataattttgttgattcttcttttgacaatcacagGATATTACCTTACTAACTCATCATCTGATCCTGGAGCTGGTGACATTCTAATGGGATTTTTGGGATCTGTTATTCTCTCATTTGCCTTCTCTATGTTCAA
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G01340.1 (Glycine max), 3'ss of exon 3
----gattcctttgcataattgtttggtatttttcttttaatttagaatatacatatt--tcttgctcgtatgtttatttattaattcttctgttaatatgaatagGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA
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agctgagtgttgtgcaaatttatc----aatttacagaca--ttaacatctgtgtaatgacttagccttgatataattttgttgattcttctgttgacaatcacagGATATTACCTTACAAACTCATCATCTGATCCTGGAGCCGGTGACATTCTAATGGGATTTTTGGGATCTGTTATTCTCTCATTTGCCTTCTCTATGTTCAA
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G34720.1 (Glycine max), 3'ss of exon 6
gattcctttgcataattgtttggtatttttcttttaatt-tagaatatacatatttcttgctcgtatgtttatttattaattcttctgttaatatgaatagGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA
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ttctctctggttccctcttccaatgcaattcttttattaatgcgatttaagcataatgaact-atatttgtttctgttgattcttctttctactttcgtagGATATTACCTTACAAAGGCATCCTCTAATCCTGGAGCTGGCGACATTTTAATGGGATTTTTGGAATCTGTTATTCTCTCATTTTCCTTCTCTATGTTTAA
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G32080.1 (Arabidopsis thaliana), 3'ss of exon 4
-----gattcctttgc-------ataattgtttggtatttttcttttaatttagaatatacatatttcttgctcgtatgtttatttattaattcttctgttaatatgaatagGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA
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gtaaagttaccttcactatgaaagaaactatagagaaacccttttttgacctaaaacagaaag------taaaagcat-----tttgttaactgctct-ttaatggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAATGGGTTTTCTTGGCTCTGTCATTCTCTCTTTCGCTTTCTCCATGTTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacatatttcttgctcgtatgtttatttattaattcttctgttaatatgaatagGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA
tatgtttatttattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattcctttgcataattgtttggtatttttcttttaatttagaatatacatatttcttgctcgtatgtttatttattaattcttctgttaatatgaatagGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA
- - cctttgc
- - - - - - - - tgtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttctgt