Sequence
atgc intronic sequence ATGC exonic sequencegttggtcttctacatcagtgacacattaacttactaaaatatcagaaacacaagtatcttaaaaacattacatctgtaactgggtcactaacttgcctttctcttttagtttaccatgctttttttggtttttttttttttttaccagAGATATAAAGCCAGACAACCTTATATTGGACATAAATGGTCACATGAAGCTCTCTGACTTTGGCCTTTGCAAGCCTCTTGACTGTTCAAATCTAGCTGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g09200.1 (Oryza sativa), 3'ss of exon 4
gttggtcttctacatcagtgacacattaacttactaaaatatcagaaacacaagtatcttaaaaacattacatctgtaactgggtcactaacttgcctttct-cttttagtttaccatgctttttttggtttttttttttttttaccagAGATATAAAGCCAGACAACCTTATATTGGACATAAATGGTCACATGAAGCTCTCTGACTTTGGCCTTTGCAAGCCTCTTGACTGTTCAAATCTAGCTGCT
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----------------------------------------------ataatgtccagctataacatttt-tgtttaaagataattgtatattttctgtttctaccctttttctgatctacatgctttggcttgttatctttttg--cagAGATATTAAGCCTGACAACCTGCTTCTCGACAAGAATGGTCACATGAAGCTGTCAGATTTTGGGCTGTGCAAGCCAATTGATTGTTCAAAGCTCTCAACA
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G452651_T01 (Zea mays), 3'ss of exon 2
gttggtcttctacatcagtgacacattaacttactaaaatatcagaaacacaagtatcttaaaaacattacatctgtaactgggtcactaacttgcctttctcttttagtttaccatgctttttttggtttttttttttttttaccagAGATATAAAGCCAGACAACCTTATATTGGACATAAATGGTCACATGAAGCTCTCTGACTTTGGCCTTTGCAAGCCTCTTGACTGTTCAAATCTAGCTGCT
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----------------------------------------accaaaaaggtcaat-cctaactaacat---gctgaaaggtttgtttttca-ttgcagAGATATTA-AGCCTG--ATAATTTGTATATTTGGCTTGTTATCATTGCAGAGATATTAAGCCTGATAATTTGCTTCTAGATAAAAATGGTCACATGAAGCTGTCAGATTTTGGGCTGTGCAAGCCAATTGACTGTTCAAAGCTCTCAACG
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G038079_T01 (Zea mays), 3'ss of exon 1
gttggtcttctacatcagtgacacattaacttactaaaatatcagaaacacaagtatcttaaaaacattacatctgtaactgggtcactaacttgcctttctcttttagtttaccatgctt-----tttttggtttttttttttttttac--cagAGATATAAAGCCAGACAACCTTATATTGGACATAAATGGTCACATGAAGCTCTCTGACTTTGGCCTTTGCAAGCCTCTTGACTGTTCAAATCTAGCTGCT-----------------------------
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------------------------------------------------------------------------------------------gtttgtttttcattgcagagatattaagcctgataatttgtatatttggcttgttatcattgcagagatattaagcctgataatttgcttctagATAAAAATGGTCACATGAAGCTGTCAGATTTTGGGCTGTGCAAGCCAATTGACTGTTCAAAGCTCTCAACGTTGAGTGAAGATGAACCCATGGGTGATGA
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G167554_T01 (Zea mays), 3'ss of exon 1
gttggtcttctacatcagtgacacattaacttactaaaatatcagaaacacaagtatcttaaaaacattacatctgtaactgggtcactaacttgcctttctcttttagtttaccatgctttttttggtttttttttttttttaccagAGATATAAAGCCAGACAACCTTATATTGGACATAAATGGTCACATGAAGCTCTCTGACTTTGGCCTTTGCAAGCCTCTTGACTGTTCAAATCTAGCTGCT
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-------------------------------------------------------------gttacatt-tatttgtttaatagcatctaatgtatcgtggtcctattattttgc-tgatttgtatatttggcttggtatcattgcagAGATATTAAGCCTGATAATTTGCTTCTAGATAAAAATGGTCACATGAAGCTGTCAGATTTTGGGCTGTGCAAGCCAATTGACTGTTCAAAGCTCTCAACG
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G07610.1 (Glycine max), 3'ss of exon 4
gttggtcttctacatcagtgacacattaacttactaaaatatcagaaacacaagtatcttaaaaacattacatctgtaactgggtcactaacttgcctttctcttttagtttaccatgctttttttggtttttttttttttttaccagAGATATAAAGCCAGACAACCTTATATTGGACATAAATGGTCACATGAAGCTCTCTGACTTTGGCCTTTGCAAGCCTCTTGACTGTTCAAATCTAGCTGCT
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---------------------------------------------------------gttggtattgttacatcttaaaattaaagtcttgtt---cttaaaatcataattttccat----cacaagtttctttgattttacccccagAGATATAAAACCTGACAACCTTCTATTGGACCAATATGGTCACATGAAGCTGTCTGATTTTGGTCTTTGCAAGCCACTTGACTGCTCAAGTCTATCATCT
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G18820.1 (Glycine max), 3'ss of exon 4
gttggtcttctacatcagtgacacattaacttactaaaatatcagaaacacaagtatcttaaaaacattaca-tctgtaactg-ggtcactaacttgcctttctcttttagtttaccatgctttttttggtttttttttttttttaccagAGATATAAAGCCAGACAACCTTATATTGGACATAAATGGTCACATGAAGCTCTCTGACTTTGGCCTTTGCAAGCCTCTTGACTGTTCAAATCTAGCTGCT
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---------------------------------------------------------gttggtattattacaatctaaaattatagtcatgttcttaaaaccacaattt--tccatcataagtttcttggttcttccct--------cagAGATATAAAACCTGACAACCTTCTATTGGACCAATATGGTCACATGAAGCTGTCTGATTTTGGTCTTTGCAAGCCACTTGACTGCTCAAGTCTATCATCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcctttctcttttagtttaccatgctttttttggtttttttttttttttaccagAGATATAAAGCCAGACAACCTTATATTGGACATAAATGGTCACATGAAGCTCTCTGACTTTGGCCTTTGCAAGCCTCTTGACTGTTCAAATCTAGCTGCT
tttaccatgctttttt CT-rich tract
atgctttttttggttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtcttctacatcagtgacacattaacttactaaaatatcagaaacacaagtatcttaaaaacattacatctgtaactgggtcactaacttgcctttctcttttagtttaccatgctttttttggtttttttttttttttaccagAGATATAAAGCCAGACAACCTTATATTGGACATAAATGGTCACATGAAGCTCTCTGACTTTGGCCTTTGCAAGCCTCTTGACTGTTCAAATCTAGCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT