Sequence
atgc intronic sequence ATGC exonic sequence...tggtgacttattgacttgttcaaagaagactcactagggaaatctaaattaggtcttctttctgatactcattgttggtttcttaatttctattgaatagGTAAAATTGACTAAGAAGGTCACTGAACAAGTAAGACTACTAGCTAAGGATGAAGATGAGAATCTTTCAGTGACAAGTTCGTATGATGTGATTCCTCCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 19
---tggtgacttattgacttgttcaa-agaagactcactagggaaatctaaattaggtcttctttctgatactcattgttggtttcttaatttctattgaatagGTAAAATTGACTAAGAAGGTCACTGAACAAGTAAGACTACTAGCTAAGGATGAAGATGAGAATCTTTCAGTGACAAGTTCGTATGATGTGATTCCTCCAT
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ttctaggtttctatt-actgatagaacatgaaactatttgtgtgaaatggtactaaaactatttttgtatctcaaacttccgctgcata---tctcatgaatagGTAAGTTTGATTAAGAAGGTTACTGAACAAGTAAGACTACTTGCCACGGATGAAGATGAGAAACTTGCAGAAAAGAGCTTATATGATGTAATTCCTCCTT
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 21
-tggtgacttattgac-ttgttcaaaga--agactcactagggaaatctaaattaggtcttctttctgatactcattgttggtttcttaatttctattgaatagGTAAAATTGACTAAGAAGGTCACTGAACAAGTAAGACTACTAGCTAAGGATGAAGATGAGAATCTTTCAGTGACAAGTTCGTATGATGTGATTCCTCCAT
| | || | | || | || | | ||| | | || | || || ||| || |||| | | | || ||| ||||||||||| |||| ||||||||| ||||||||||||||||| ||||| | |||||||||||||| ||| ||| | || | |||||||| |||||||| |
tttctagattttcaatactgatagaacatgaaactatttgtgtgaaatggtactaaaactatttttgtat-ctcaacttccactgcata---tctcgtgaatagGTAAGTTTGATTAAGAAGGTTACTGAACAAGTAAGACTGCTAGCCACCGATGAAGATGAGAAACTTGCAGAAAAGAGCTTATATGATGTAATTCCTCCTT
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 19
tggtgacttattgacttgttcaaagaagactcactagggaaatc-taaattaggtcttctttctgatactcattgttggtttcttaatttctattg--aatagGTAAAATTGACTAAGAAGGTCACTGAACAAGTAAGACTACTAGCTAAGGATGAAGATGAGAATCTTTCAGTGACAAGTTCGTATGATGTGATTCCTCCAT
|||| | | | | | ||| ||| |||| |||| | | || || || | ||| || | |||| |||||||||| |||||||||||||| || |||||||||||| |||| || | |||||| ||||||| ||| ||| | ||| | |||||||| |||||||| |
--gtgaaattgcaagtaaagcct-gtctactgtttagcaaaatggctaattgttaatcatgccttatttaacttctcaattttcctatgtacattgtcaatagGTAAAGTTGACTAAGAAGGTTACCGAACAAGTAAGATTACTTGCACAAGATGAAAATGAGAAACTTACAGAAAGAAGCTTATATGATGTAATTCCTCCTT
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 35
-tggtgacttattga---cttgttcaaagaa-gactcactagggaaatctaaattaggtcttctttctgatactcattgttggtttcttaatttctattg--aatagGTAAAATTGACTAAGAAGGTCACTGAACAAGTAAGACTACTAGCTAAGGATGAAGATGAGAATCTTTCAGTGACAAGTTCGTATGATGTGATTCCTCCAT
|| | | | | ||| | | | | | | || | | ||| | || || ||| || || | ||| || |||| |||||||||| |||||||||||||| || ||||||||||| |||| || |||||||| ||||||| ||| ||| | ||| | |||||||| |||||||| |
gtgaaaatgcaagtaaagcctgtctactgtgtagcaaaatggctaattgttaatcatgttttattt--aat-----ttctcaattttcctatgcacattgtcaatagGTAAAGTTGACTAAGAAGGTTACCAAACAAGTAAGATTACTTGCACAGGATGAAAATGAGAAACTTGCAGAAAGAAGCTTATATGATGTAATTCCTCCTT
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT3G01310.2 (Arabidopsis thaliana), 3'ss of exon 22
tggtgacttattgacttgttcaaagaagactcactagggaaatctaaatta--ggtcttctttctgatactcattgttggtttcttaatttctat-tgaatagGTAAAATTGACTAAGAAGGTCACTGAACAAGTAAGACTACTAGCTAAGGATGAAGATGAGAATCTTTCAGTGACAAGTTCGTATGATGTGATTCCTCCAT------
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---tttatggttgcatttctcttccattttttccctcgcacaagtgatttactggagtccaggaaaaaactcttatctgttgaattactttctaaataatcagGTGAAATTAACTAAGAATGTGACTGAACAAGTAAGACTACTTGCAATGGATGAAGACGAGAACCTCACTGAGCCA------TACGATATAATTCCTCCATATGATC
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 22
-tggtgacttattgacttgttcaaagaagactcactagggaaatctaaattag-gtcttctttctgatactcattgttggtttcttaatttctattgaatagGTAAAATTGACTAAGAAGGTCACTGAACAAGTAAGACTACTAGCTAAGGATGAAGATGAGAATCTTTCAGTGACAAGTTCGTATGATGTGATTCCTCCAT
|| | | | | || || | | | || ||| | | | | | | | | | || | |||| | | | | | ||||||||||||| |||| ||||| |||||||||||||| ||||| || | |||||| | |||||||| | | | | || | |||||||| | |||||||
aaaatggaatgtcaagtgttttaactacttggcgcaagaaaaaggtttactggagagcacaaaataacgttacttctctgtttact--tcttaaataaatagGTAAAATTAGCTAAAAAGGTGACTGAACAAGTAAGGCTACTTGCACAAGATGAACACGAGAATCTCGCTGAGCCTAGCGCTTATGATGTAGTCCCTCCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattaggtcttctttctgatactcattgttggtttcttaatttctattgaatagGTAAAATTGACTAAGAAGGTCACTGAACAAGTAAGACTACTAGCTAAGGATGAAGATGAGAATCTTTCAGTGACAAGTTCGTATGATGTGATTCCTCCAT
tcttaat putative branch site (score: 3)
tttctatt CT-rich tract
tttcttaatttctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtgacttattgacttgttcaaagaagactcactagggaaatctaaattaggtcttctttctgatactcattgttggtttcttaatttctattgaatagGTAAAATTGACTAAGAAGGTCACTGAACAAGTAAGACTACTAGCTAAGGATGAAGATGAGAATCTTTCAGTGACAAGTTCGTATGATGTGATTCCTCCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
tggtgac
- - - - - -tgacttg
- - - - - - - - - - caaagaa
- - - - - - - - - - - - - - - - - -agggaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttggt