Sequence
atgc intronic sequence ATGC exonic sequencegtatatggacaaaagagcaagttgaagcctggaagcccattgtagatgctgttcatgctaaaggcagtatctttatttgtcagCTTTGGCATGTGGGAAGAGTTTCAAACACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0041g02040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G35410.1 (Glycine max), 3'ss of exon 2
---------------------------------------------------------------------------------------------------------------------gtatatggacaaaagagcaagttgaagcctggaagcccattgtagatgctgttcatgctaaaggcagtatctttatttgtcagCTTTGGCATGTGGGAAGAGTTTCAAACACAG
|||||||| ||||||||||| ||||||| ||||| |||||||| |||||||||||||| ||||| |||| || | ||||||
tgataagatttaatcttctatatatatttattctcttcctctcgcatgataaaattcatctcatttgatggtactcccccttttggtgatgtgtttaaagCCATCCAAACGCAGTTGGTATATGGTCAAAAGAGCAAATTGAAGCATGGAAACCCATTGTGGATGCTGTTCATGCCAAAGGTGGTATATTCTTCTGTCAG-------------------------------
upper sequence: Vv18s0041g02040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------------------------------------------------------------gtatatggacaaaagagcaagttgaagcctggaagcccattgtagatgctgttcatgctaaaggcagtatctttatttgtcagCTTTGGCATGTGGGAAGAGTTTCAAACACAG
| ||||||| |||||||||||||||||| ||||| |||||||| |||| |||||||| ||||| || | || ||||||||
gtaatttgtttatgacttacctttgcttgatgaatgaaaaagaagacactgtttaatgtgattttgttaattactttttattatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG-------------------------------
upper sequence: Vv18s0041g02040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G00980.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------------------------------------------------gtatatggacaaaagagcaagttgaagcctggaagcccattgtagatgctgttcatgctaaaggcagtatctttatttgtcagCTTTGGCATGTGGGAAGAGTTTCAAACACAG
| |||||||||||| ||||||| |||| ||||| |||||||| ||||| |||||||| ||||| ||||||| ||||||||
gtacctacacacttatttcaattctctcatttctgctaattataatttgcaccttcactccagtactatcactatacataataataatacatgtcaagGTATCCACACACACCTGGCATATGGACAAAACAGCAAGTCCAAGCGTGGAAACCCATTGTGGATGCCGTTCATGCCAAAGGTGGTATCTTCTTTTGTCAG-------------------------------
upper sequence: Vv18s0041g02040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G25570.1 (Glycine max), 3'ss of exon 2
---------------------------------------------------------------------------------------------------------------------gtatatggacaaaagagcaagttgaagcctggaagcccattgtagatgctgttcatgctaaaggcagtatctttatttgtcagCTTTGGCATGTGGGAAGAGTTTCAAACACAG
|||||||| ||| ||||||| | ||||| ||||| |||||||| |||||||||||||| ||||| |||| || | ||||||
tcacaataaaatttaatcgtttatatttattcattttcctctcgacatgataaaattcatctctttgatgatacttccccttttgatgatgtgtataaagCCATCCAAACGCAGTTGGTATATGGTCAAGAGAGCAAATCGAAGCATGGAAACCCATTGTGGATGCTGTTCATGCCAAAGGTGGTATATTCTTCTGTCAG------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctggaagcccattgtagatgctgttcatgctaaaggcagtatctttatttgtcagCTTTGGCATGTGGGAAGAGTTTCAAACACAG
tgctaaa putative branch site (score: 2)
tctttattt putative PPT
tatctttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatggacaaaagagcaagttgaagcctggaagcccattgtagatgctgttcatgctaaaggcagtatctttatttgtcagCTTTGGCATGTGGGAAGAGTTTCAAACACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA