Sequence
atgc intronic sequence ATGC exonic sequence...tcctttattttttgtttttaccacgtttcttgtgatattactgtttatgtgcaactctgttctaatgtctccactgacttctaaattctcaacatttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G43540.2 (Glycine max), 3'ss of exon 3
tcctttattttttgtttttaccacgtttcttgtgatat-tactgtttatgtgcaactctgttctaatgtctccactgacttctaaatt--ctcaac-atttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA
| | ||| || | ||| || | | ||| | || || ||| ||| | | |||||| || | || | || ||||||||| || |||||||| ||||| ||||| |||||||||||||||||||||||||| |||||||||||||| || | |||| || ||||||||||||||||
aacaccttgaagtgtctt-gtgaggttgattataccttctacagctt---tgacgctccattcagctcacctcactgattttgtatttaattgaatgatttcagCTCGTGTTTTCATCTTCAGCAACTGTATATGGTTGGCCAAAGGAGGTTCCATGCACAGAAGAGTTCCCTCTGTCAGCAATGAACCCATATGGACGAACTA
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G02690.2 (Glycine max), 3'ss of exon 3
---------tcctttattttttgtttttaccacgtttcttgtgatattactgtttatgtgcaactctgttctaatgtctccactgacttctaaattctcaac--atttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA
|| ||| || | || | || ||||||| ||| | | |||| ||| || | ||||| || | |||| | |||||||||||| || ||||| ||||| ||||| ||||| |||||||||||||| |||||||| ||||||||||| | | |||||||| |||||||||||||| |
accttttactctcctatcccctgctattttgaagtgtcttgtggaattggt-----tacgcaa------tctgattatttaactgattttatatttcttgaatgatttcagCTTGTGTTCTCATCTTCAGCAACTGTATATGGGTGGCCAAAGGAGGTCCCATGTACCGAAGAGTTCCCTTTGTCAGCAACAAACCCATATGGACGAACCA
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 3
tcctttattttttgtttttaccacgtttcttgtgatattactgtttatgtgcaactctgttctaatgtctccactgacttctaaattctc---aacatttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA
|| | | | | | | ||| | | | |||| | ||| || || ||| || | ||||| || | |||| | |||||||||||| || ||||| ||||| ||||| ||||| |||||||||||||| |||||||| ||||||||||| | | |||||||| |||||||||||||| |
-ttttgaagtgtcttgtggaattggttacgcatta-atta-tattttcttgatgctgcaatctgattatttaactgattttatatttctttgaatgatttcagCTTGTGTTCTCATCTTCAGCAACTGTATATGGCTGGCCAAAGGAGGTCCCATGTACCGAAGAGTTCCCTTTGTCAGCAACAAACCCATATGGACGAACCA
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G01940.3 (Glycine max), 3'ss of exon 3
tcctttattttttgtttttaccacgtttcttgtgatattactgtttatgtgcaactctgttctaatgtctccactgacttctaaattctc---aacatttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA
| | ||| || | ||| || | | || | ||| ||| |||| | |||||| || | || | | ||||||||| || || || || ||||| ||||| ||||||||||||||||| |||||||| |||||||||||||| || | |||| || ||||||||||||||||
aacaccttgaagtgtctt-gcggggttgattatacctt--ctagcgctttgctgctccattctgctcgtctcactgattttgtatttatttgaatgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCATGCACAGAAGAGTTCCCTCTGTCAGCAATGAACCCATATGGACGAACTA
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G64440.1 (Arabidopsis thaliana), 3'ss of exon 3
---tcctttattttttgtttttaccacgtttcttgtgatattactgtttatgtgcaactctgttctaatgt--ctccactgacttctaaattctcaacatt--tcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA
| |||| || | || | | || || |||| || | | | || | | ||| | || | | | | | | | | | | ||||||||| ||||| || || |||||||| ||||| ||||||||||||||||| ||||||||||||| || || | || || | ||| |||||||| || |
gtaaaatccccttttggtctgtattgcagatttt-tggtattcct-tatgtatgtgagtatgtgacagtgaaacatgatttaactttctctcattgatctcaatcagCTTGTATTTTCTTCGTCCGCTACTGTGTATGGCTGGCCAAAGGAGGTTCCTTGTACAGAAGAGTCTCCCCTGTCTGGAATGAGTCCTTATGGACGGACAA
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G23920.1 (Arabidopsis thaliana), 3'ss of exon 3
---------tcctttattttttgtttttaccacgtttcttgtgatattactgtttatgtgcaactctgttctaatgtctccactgacttctaaattctcaacatttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA
| | || | | | ||||| | | | ||| || | ||| | | || || | || ||| || | ||| || |||||||| |||||||||||||||||||| ||||| ||||| ||||||||||| || || || |||| ||| | | ||| || || |||||||| || || |
gtaatttttttccttcctctctctttttctaattgccaccacatgcattccctttttgagtttgtcttgtttgatctcattattggcttttac-tactctgttttccagCTTGTATTTTCATCATCAGCTACTGTCTATGGCTGGCCTAAGGAGGTTCCTTGCACTGAGGAGTCACCAATTTCTGCCACTAACCCATATGGCCGTACAA
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G10960.1 (Arabidopsis thaliana), 3'ss of exon 3
tcctttattttttgtttttaccacgtttcttgtgatattactgtttatgtgcaactctgttctaatgtctccactgacttctaaattctcaacatttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA
| ||| |||| ||| || | || | | || | ||| || || | | || | | || || | ||| || |||||||| |||||||||||||| ||||| ||||| | ||||| || ||||| |||||||| ||||| ||| | | ||| || |||||||||||||| |
gtatgtataatttgccactac-acaacaagttcgaatccatttttactttgc----ttgatcaattctcatgattagctacttt-tactctgt-ttccagCTTGTGTTTTCATCATCAGCAACTGTGTATGGCTCTCCAAAAGAAGTTCCTTGTACAGAGGAGTTTCCAATTTCTGCTTTGAACCCATATGGACGAACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgtgcaactctgttctaatgtctccactgacttctaaattctcaacatttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA
ttctaaa putative branch site (score: 2)
ttctaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcctttattttttgtttttaccacgtttcttgtgatattactgtttatgtgcaactctgttctaatgtctccactgacttctaaattctcaacatttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA
- - - - - - - - - - - - - - - - - - - - - - -tatgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctccac