Sequence
atgc intronic sequence ATGC exonic sequencegtttgggattgttctttgttacattgttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
gtttgggattgttctttgttacatt-gttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC
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gtgtgtgccaacacaatattattttcattatctggtaggttcaaat---aaaaatggatttattact-gtggtgcttttgaattaaattttgt--agTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 3
gtttgggattgttctttgttacattgttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC
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-------------gtatgttgatttaatataaaccttatatcctgttgttgctggatgaaaatgaatttctcatcagctttgtaattcttttgtagTTCGAAGCAGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTC
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 3
gtttgg-gattgttctttg-ttacattgttgtttggttatta--gcagttttgtagtttgtttaag-tacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC
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-tttggcgcttaaaaggtgcttaagcgattttttagtaaccatgaccccgttgtcgctggatgaaaatgaatttctcatgagctttataattcttttgtagTTTGAAGCCGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGCTGTTATTGACCATGGGGCTGTTCCTATATTTGTGAAGCTTC
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 3
gtttgggattgttctttgttacattgttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC
||||| || ||| || | || |||| || || || || | || ||| | |||| ||| | | | || ||||| ||||||||||| || |||||||||||||||||||| |||||||| || || || || |||||||||||||||||||| ||||| || |||||||| |||||||
gtttgaatgccttttttcttttcatcttatttgttt-ttccttgtggtggatattcattagtaatttatgtcacttgttgtttg---tttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTAC
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G37180.1 (Glycine max), 3'ss of exon 4
gtttgggattgttctttgttacattgttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC
||||| ||| | |||| | | || ||| || || | | || ||| || |||| ||| | || || ||||| ||||||||||| || |||||||||||||||||||| |||||||| || || || || ||||||||||||||||| || ||||| || |||||||| |||||||
gtttga-attcctttttgctttgcatcttatttgtttttccttgtggtagatattcattagttatttatgtcact--tgcttttg--tttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCACGGGGCAGTTCCTATATTTGTCAAGCTAC
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 3
gtttgggattgttctttgttacattgttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaatt-ttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC
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gttttgttttattccctgc------attggaagtttttgtgtggtgtagt-gttgatgacatttgttgtgttgattggttctttgtttgtttgctagTTTGAGGCTGCGTGGGCTCTCACAAACATAGCATCTGGAACTTCTGAGAATACCAAGGTGGTGATTGATCATGGGGCAGTTCCGATATTTGTCAAGCTAC
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G15480.1 (Glycine max), 3'ss of exon 3
gtttgggattgttctttgttacattgttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaatt--ttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC
|||| | | ||| || ||||| || ||| | | ||| | || || | | | || | | || ||| || ||| ||||||||||| || ||||||||||| |||||||| ||||| || || || |||||||||||||| ||||||||||| || ||||| |||||||| || ||||
gttttgctctattccctg---cattggaagtt--ttagt-gtagtgtagt-gtagatgggatttgttgtgttgattggttctttgtttgtttggttagTTTGAGGCTGCGTGGGCTCTCACGAACATTGCATCTGGAACTTCTGAGAATACCAAGGTGGTGATTGATCATGGGGCGGTGCCGATATTTGTCAAACTAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagttttgtagtttgtttaagtacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC
ttttgtct CT-rich tract
tttaagtacttatttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgggattgttctttgttacattgttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC