Sequence
atgc intronic sequence ATGC exonic sequence...gtccctttgcccatatgttcatgtatgtgaatttattgttgtaacatgtaaactcagcatgttttaaattctcttggttgatattttccccttctttcagCTAAAATTGGTGTCAATGAAAGATCCCTGGTCAGAAAGGGTTGATTTTCTTATTGAGGTCATGGTATCCTTTTTTGAGAAGCAACAGTCTCAAAAAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g01110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g26960.1 (Oryza sativa), 3'ss of exon 9
gtccctttgcccatatgttcatgtatgtgaatttattgt-tgtaacatgtaaactcagcatgttttaaattctcttggttgatattttccccttctttcagCTAAAATTGGTGTCAATGAAAGATCCCTGGTCAGAAAGGGTTGATTTTCTTATTGAGGTCATGGTATCCTTTTTTGAGAAGCAACAGTCTCAAAAAGAAG
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-tcagatgagtctttcatcactgagttcactcttaagatattttgcacgtgaaactgaaataaatgcgtttcatgtgcttaacttcttcctatatatacagCTCAAGTTAATTTCAGAGGAGGACCCATGCAGTGGAAGACGTGATTTTCTTATTGAGGTCCTGGTTGCCTTTTTTGAGAAGCGTCAGTCACAGAAAGATG
upper sequence: Vv08s0056g01110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G00260.1 (Glycine max), 3'ss of exon 8
--gtccctttgcccatatgttcatg-tatgtgaatttattgttgtaacatgtaaactcagcatgttttaaattctcttggttgatattttccccttctttcagCTAAAATTGGTGTCAATGAAAGATCCCTGGTCAGAAAGGGTTGATTTTCTTATTGAGGTCATGGTATCCTTTTTTGAGAAGCAACAGTCTCAAAAAGAAG
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gattgattttaaaaatagtataataatgcttggaagaatga--gccacgtgttgatttttaatacctcatacttctgtgtttgacgttgtttcattatg-cagCTTAAACTGGTCTCTAAGGAAGATCCCTGGTCAGAGAGGGTTGATTTTCTTATTGAAGTAATGGTGTCCTATTTTGAGAAGCAACAATCTCAAAAAGAAG
upper sequence: Vv08s0056g01110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA0048S00340.1 (Glycine max), 3'ss of exon 8
gtccctttgcccatatgttcatgtatgt--gaatttattgt-tgtaacatgtaaactcagcatgttttaaattctcttggttgatattttccccttctttcagCTAAAATTGGTGTCAATGAAAGATCCCTGGTCAGAAAGGGTTGATTTTCTTATTGAGGTCATGGTATCCTTTTTTGAGAAGCAACAGTCTCAAAAAGAAG
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--ttcaaaaatagtatagtaatgcttgcaagaatgagccatgtgttgatttttaataccacattccacatacttctgtgtttgacgttgtttcattatg-cagCTTAAACTGGTCTCTAAGGAAGATCCCTGGTCAGAGAGGGTTGATTTTCTTATTGAAGTAATGCTGTCCTATTTTGAGAAGCAACAATCTCAAAAAGAAG
upper sequence: Vv08s0056g01110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT2G38770.1 (Arabidopsis thaliana), 3'ss of exon 8
gtccctttgcccatatgttcatgtatgtgaatttattgttgtaacatgtaaactcagcatgttttaaattctcttggttgatattttccccttcttt----cagCTAAAATTGGTGTCAATGAAAGATCCCTGGTCAGAAAGGGTTGATTTTCTTATTGAGGTCATGGTATCCTTTTTTGAGAAGCAACAGTCTCAAAAAGAAG
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---ttttcgttaaaatatacttttgt-tgccttagaagttcacgtacaacaattatacaccttgccacctacattggttctcattttcatttgcttttgtgcagCTCAAACTGGTTTCAAGACATGATCCTTGGGCAGATAGTAAAGATTTTCTGACTGAAGTCGTTGTCTCCTCTTTTGAGAAGCAACAGTCTCAGAAAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtaaactcagcatgttttaaattctcttggttgatattttccccttctttcagCTAAAATTGGTGTCAATGAAAGATCCCTGGTCAGAAAGGGTTGATTTTCTTATTGAGGTCATGGTATCCTTTTTTGAGAAGCAACAGTCTCAAAAAGAAG
ggttgat putative branch site (score: 5)
ttgatattttcccctt CT-rich tract
atgttttaaattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccctttgcccatatgttcatgtatgtgaatttattgttgtaacatgtaaactcagcatgttttaaattctcttggttgatattttccccttctttcagCTAAAATTGGTGTCAATGAAAGATCCCTGGTCAGAAAGGGTTGATTTTCTTATTGAGGTCATGGTATCCTTTTTTGAGAAGCAACAGTCTCAAAAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - ttgccca
- - - - - - - - - - - gtatgtg
- - - - - - - - - - - - - - - - - - - - - - - - -aaactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggttga