Sequence
atgc intronic sequence ATGC exonic sequencegtctgagtttggtttttcatttcttcttcatttttctgttagcctgatgtttccctagttatttcataatcaatgttggcttcgtctgttatatagttttcttcttgctctttctgtagGAATTGAGTCATTCTCAAAGTTAGGAGACTCCATATACTTTGAGGAGGAGGGAGAAGTTCCTGGGCTTTACATAATTCAGTACATATCAAGCTCACTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os06g41030.1 (Oryza sativa), 3'ss of exon 8
gtctgagtttggtttttcatttcttcttcatttttctgttagcctgatgtttccctagttatttcataatcaatgttggcttcgtctgttatatagttttcttcttgctctttctgtagGAATTGAGTCATTCTCAAAGTTAGGAGACTCCATATACTTTGAGGAGGAGGGAGAAGTTCCTGGGCTTTACATAATTCAGTACATATCAAGCTCACTTGA
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----------------------------------------------gtaattcctgaatatttgtgcaagtgatcttccatccttgtgtc-tgaatcttctaatttgcattg---gcagGGATAGAGTCATTCTCAAAGTTAGGGGATTCCATCTACTTCTTGGAAGAGGGAGAAATCCCTGGGCTTTACATCATTCAGTACATACCAAGCACCTTTGA
upper sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G14020.1 (Glycine max), 3'ss of exon 8
gtctgagtttggtttttcatttcttcttcatttttctgttagcctg-atgtttccctagttatttcataatcaatgttggcttcgtctgttatatagttttcttcttgctctttctgtagGAATTGAGTCATTCTCAAAGTTAGGAGACTCCATATACTTTGAGGAGGAGGGAGAAGTTCCTGGGCTTTACATAATTCAGTACATATCAAGCTCACTTGA
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-----------gtatacaattgttttgttatatacttccgaaactgcattctttttcaactacaccatacttt-tatcaa--tcatttagtctcaatttctttttctgtttatt----agGAATTGAATCATTCTCAAAGCTGGGGGATTCTATCTATTTTGAGGAGGAAGGAAAAGATCCCACACTTTACATCATTCAGTACATACCAAGCTCATTTAA
upper sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 9
gtctgagtttggttt-ttcatttcttcttcatttttctgttagcctgatg-tttccctagttatttcataatcaatgttggct-tcgtctgttatatagttttcttcttgctctttctgtagGAATTGAGTCATTCTCAAAGTTAGGAGACTCCATATACTTTGAGGAGGAGGGAGAAGTTCCTGGGCTTTACATAATTCAGTACATATCAAGCTCACTTGA
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gtgtgcatttattttgtttagatactttccaaactgcaacaaactgcacaattttcttggtcaactcaactatactcttatcggtcatttattctaaaaaaaatatttggtt-----tatagGAATTGAATCGTTCTCAAAGCTGGGAGATTCTATCTATTTTGAAGAGGAAGGCAAAGATCCTACACTTTACATCATTCAGTACATATCAAGCTCGTTTAA
upper sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 8
gtctgagtttggtttttcatttcttcttcatttttctgttagcctgatgtttccctagttatttcataatcaatgttggcttcgtctgttatatagtttt--cttcttgctctttctgt-agGAATTGAGTCATTCTCAAAGTTAGGAGACTCCATATACTTTGAGGAGGAGGGAGAAGTTCCTGGGCTTTACATAATTCAGTACATATCAAGCTCACTTGA
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--------------gtatacaattgttttgtttatatact--tccgaaactgcatt--ctttttca-actccaccatacttttatcaatcatttaatctcaatttctttttctgtttattagGAATTGAATCATTCTCAAAGCTGGGGGATTCTATCTATTTTGAAGAGGAAGGCAAAGATCCTACACTTTACATCATTCAGTACATTTCAAGCTCATTTAA
upper sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ23069 (Selaginella moellendorffii), 3'ss of exon 5
gtctgagtttggtttttcatttcttcttcatttttctgttagcctgatgtttccctagttatttcataatcaatgttggcttcgtctgttatatagttttcttcttgctctttctgtagGAATTGAGTCATTCTCAAAGTTAGGAGACTCCATATACTTTGAGGAGGAGGGAGAAGTTCCTGGGCTTTACATAATTCAGTACATATCAAGCTCACTTGA
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------------------------------------------------------gtgcgtattttcttgcaagcttt----tcgttcactaacttggagaaaattttctttcatttcagGCATTGAGTCGTTCTCAAAGTTTGGAGACTCGATTTACTTTGAGGACTATGGTGTGAGGGACGAGAATCCAGGAGCACAGCGGCCAATCCCAGCACTTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cataatcaatgttggcttcgtctgttatatagttttcttcttgctctttctgtagGAATTGAGTCATTCTCAAAGTTAGGAGACTCCATATACTTTGAGGAGGAGGGAGAAGTTCCTGGGCTTTACATAATTCAGTACATATCAAGCTCACTTGA
ttttcttcttgctctt CT-rich tract
ttatatagttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgagtttggtttttcatttcttcttcatttttctgttagcctgatgtttccctagttatttcataatcaatgttggcttcgtctgttatatagttttcttcttgctctttctgtagGAATTGAGTCATTCTCAAAGTTAGGAGACTCCATATACTTTGAGGAGGAGGGAGAAGTTCCTGGGCTTTACATAATTCAGTACATATCAAGCTCACTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA