Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgggtttcagtcaactgtattgaatttctcactaatatctttaaatattgtctttctactaaaatattttgaattttttttctttattatatgccatatctccttatgaactattatctaagatttggggttatgtatgtacagAGGAACGGGGCCCTCCCCAAGATCCAATCATGTGGCAGCTCTCTATGATGATAAAATTCTTTTTATTTTCGGAGGAGGATCAAAATCTAGGACTCTGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os11g43590.4 (Oryza sativa), 3'ss of exon 9
gtaagtgggtttcagtcaactgtattgaatttctcactaatatctttaaatattgtctttctactaaaatattttgaattttttttctttattatatgccatatctccttatgaactattatctaagatttggggttatgtatgtacagAGGAACGGGGCCCTCCCCAAGATCCAATCATGTGGCAGCTCTCTATGATGATAAAATTCTTTTTATTTTCGGAGGAGGATCAAAATCTAGGACTCTGAAT
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------------------------------------------------aatgcagcagttcctgcactgtggcactgaatttcctcaatgttcgaattattcttgtgcttatcattttctcttattgattataagtccactgt-tctagAGGTGCTGGACCTTCTCCAAGATCCAATCATGTGGCTGCTCTGTATGATGATAGAATTCTATTGATCTTTGGAGGCCAATCAAAATCCAAAACACTCAAT
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G10310.1 (Glycine max), 3'ss of exon 9
----------------gtaagtgggtttcagt-caactgtatt--gaatttctcactaatatctttaaatattgtctttctactaaaatattttgaat-tttttttctttattatatgccatatc----tccttatgaactattatctaagattt--------ggggttatgt-atgtacagAGGAACGGGGCCCTCCCCAAGATCCAATCATGTGGCAGCTCTCTATGATGATAAAATTCTTTTTATTTTCGGAGGAGGATCAAAATCTAGGACTCTGAAT
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gtaattgtgtttacgctttgttgtggttgattacttctgtttttaaagttcaaaaacaaaagttttgacttgcatgtttttaaggacctgatttaaatgtttccttgcttttgaaatgtaatgctgtgttctttttttttttttaccccatactacctcctaaaatattatatcacttgcagGGGAGCAGCACCTTGTCCAAGATTCAACCATGTGGCAGCTCTTTATGATGGTAAAATTCTTTTTATATTTGGAGGAGCATCAAAATCTAGGACCTTGAAT
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G28760.1 (Glycine max), 3'ss of exon 7
gtaagtgggtttcagtcaactgtattgaatttctcactaatatctttaaatattgtctttctactaaaatattttgaattttttttctttattatatgccatatctccttatgaactattatctaagatttggggttatgtatgtacagAGGAACGGGGCCCTCCCCAAGATCCAATCATGTGGCAGCTCTCTATGATGATAAAATTCTTTTTATTTTCGGAGGAGGATCAAAATCTAGGACTCTGAAT
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--------------------------aaggacctgatttaaatgttt---ccttgcttttgtaatgtaatgctgtgttctttttttttttaccc----ccatactacctgctgaaatatcatat----------------cactaacagGGGAGCAGCACCTTGTCCTAGATTCAACCATGTGGCAGCTCTTTATGATGGTAAAATTCTATTTATATTTGGAGGAGCATCAAAATCCAGGACCTTGAAT
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G38020.1 (Glycine max), 3'ss of exon 8
gtaagtgggtttcagtcaactgtattgaatttctcactaatatctttaaatattgtctttctactaaaatattttgaattttttttctttattatatgccatatctccttatgaactattatctaagatttggggttatgt-atgtacagAGGAACGGGGCCCTCCCCAAGATCCAATCATGTGGCAGCTCTCTATGATGATAAAATTCTTTTTATTTTCGGAGGAGGATCAAAATCTAGGACTCTGAAT
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gtaag--ggattaaaaagaaaaagttggacttagttgtgat-tatctaatcataatcaccc------aatatcctga------tttttttactgca------atatcctgatgttatgttgcct-----ttgaaattatattacttgcagGGGAACAGCACCTTCTCCAAGATTCAACCATGTAGCTGCTCTTTATGATGATAAAATTCTTTATATATTTGGAGGATCATCAAAATCCAGGACCTTAAAT
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G02680.1 (Glycine max), 3'ss of exon 7
gtaagtgggtttcagtcaactgtattgaatttctcactaatatctttaaatattgtctttctactaaaatattttgaattttttttctttattatatgccatatctccttatgaac---tattatctaagatttggggttatgt-atgtacagAGGAACGGGGCCCTCCCCAAGATCCAATCATGTGGCAGCTCTCTATGATGATAAAATTCTTTTTATTTTCGGAGGAGGATCAAAATCTAGGACTCTGAAT
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-------------------------------------------------gtaa-gtgattaaaaagaaaaagttggacttagttttgattatctagtcata-atcacccaatatcctgatattatgtcgcctttgaaattgtattatttgcagGGGAACAGCACCTTCTCCAAGATTCAACCATGTAGCTGCTCTTTATGATGATAAAATTCTTTATATATTTGGAGGATCATCAAAATCCAGGACCTTAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgccatatctccttatgaactattatctaagatttggggttatgtatgtacagAGGAACGGGGCCCTCCCCAAGATCCAATCATGTGGCAGCTCTCTATGATGATAAAATTCTTTTTATTTTCGGAGGAGGATCAAAATCTAGGACTCTGAAT
tattatctaagattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgggtttcagtcaactgtattgaatttctcactaatatctttaaatattgtctttctactaaaatattttgaattttttttctttattatatgccatatctccttatgaactattatctaagatttggggttatgtatgtacagAGGAACGGGGCCCTCCCCAAGATCCAATCATGTGGCAGCTCTCTATGATGATAAAATTCTTTTTATTTTCGGAGGAGGATCAAAATCTAGGACTCTGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT