Sequence
atgc intronic sequence ATGC exonic sequence...aaagatccatgattagctttatacattctctgaaatgaaaaggtagaatttcttctaatattgaattgggatagcatatgtgatgtgtgaaatattgcagGAGGGCCTACAAGTGAAACACGTGGAATTTTAAATTTGAGTATCCAGTATTGGACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os06g11180.1 (Oryza sativa), 3'ss of exon 11
aaagatccatgattagctttatacattctctgaaatgaaaaggtagaatttcttctaatattgaattgggatagcatatgtgatgtgtg--aaatattgcagGAGGGCCTACAAGTGAAACACGTGGAATTTTAAATTTGAGTATCCAGTATTGGACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
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tgtggtttctgtctaatttggttcgttaggttat-tgcatccttcttttccatgatcacaatca-tggcaatcgcatatttgatattccccacatctttcagGAGGACCAACAGCAGAAACACGTGGAATTCTGGACCTGAGTGTTCAGTATTGGACAAGTCGAGGATGGGCATATCTTGATGTTAACTATGGGGGAAGCAC
upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G120302_T02 (Zea mays), 3'ss of exon 11
----------------------------------------------------------------aaagatccatg-attagctttatacattctctgaaat-----gaaaaggtagaatttcttctaa--------------------tattgaattgggatagcata----tgtgatgtgtgaaatattgcagGAGGGCCTACAAGTGAAACACGTGGAATTTTAAATTTGAGTATCCAGTATTGGACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
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gtaagtgaattattcaaaccttatgttgcttgaaataattattcggtttgatccccctcaaaagaactatacatgtattcagcttaagtgttctcttagattttacaaaaataaatgatttttgctaagtaggtttgaaattctttcttttcagatgaaaatcacagaatgctttgacactctaaatttt-cagGAGGACCAACTGCTGAAACACGTGCAATTCTGGACCTCAGTGTCCAGTATTGGACAAGTAGAGGGTGGGCATATGTCGATGTCAACTATGGAGGAAGCAC
upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G42730.1 (Glycine max), 3'ss of exon 11
aaagatccatgattagctt--tatacattctctgaaatgaaaaggtagaatttcttctaatattgaattgggatagcatatgtgatgtgtgaaatattgcagGAGGGCCTACAAGTGAAACACGTGGAATTTTAAATTTGAGTATCCAGTATTGGACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
|| || | ||| ||| ||| | | | || | | ||| | || || | ||| | | ||| |||| |||| |||| || || || ||||||||||||||||||||| ||||| || ||||| ||||||||||| ||||||||||| || ||||| |||||||||||||||||
taattgttttggcaaactttttatgcatgggttctcttaatgagtaatgacttcatacaacgcacttttatattttcat-tattttgtttgaa-tatttcagGTGGACCAACTGCTGAAACACGTGGAATTTTAAACTTGAGCATTCAGTACTGGACTAGTCGGGGTTGGGCATTCGTTGATGTTAATTATGGTGGAAGCAC
upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA18G11480.1 (Glycine max), 3'ss of exon 11
aaagatccatgattagctttatacattctctgaaatgaaaaggtag-aatttcttctaatattgaattgggatagcatatgtgatgtgtgaaatattgcagGAGGGCCTACAAGTGAAACACGTGGAATTTTAAATTTGAGTATCCAGTATTGGACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
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-aattacttttgtcaaagttgtcatgtgtgggttctatcactctaatggcttcatgaaacatacacttctatatgtgcattattttatttgaatgtttcagGTGGACCAACTCAAGAAACTCGTGGAATTTTAAATTTGAGCGTTCAGTACTGGACTAGTCGAGGTTGGGCCGTCGTTGATGTTAATTATGGTGGAAGTAC
upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G36210.1 (Arabidopsis thaliana), 3'ss of exon 11
---------------------------------------------------------------------------------aaagatccatgattagctttatacattctctgaaatgaaaaggtagaatttcttctaatattgaattgggatagcatatgtgatgtgtgaaatattgcagGAGGGCCTACAAGTGAAACACGTGGAATTTTAAATTTGAGTATCCAGTATTGGACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
| | | | | | | ||| || ||| || ||| | | | | || | | ||| | ||| | | | ||||||| ||||| |||| |||||||| |||||| ||| |||||| || ||||| |||||||||||||||||||| ||||| |||||||||||||||||
gtatgttaaacttacgacatcccgatttttcaaaacttaatcaaaataattcctcagtttcagtcttgttcatcttaagatcatgttttcgtttcaagtatgtactttagctgtaacataaatattgcaatcagctatgcatggcacatcgatcatttttgttgacaatctgaatctacagGAGGACCTACTGCTGAATCACGTGGATCCTTAAATCTGAATATCCAATACTGGACAAGTCGAGGTTGGGCATTTGTTGATGTCAATTATGGTGGAAGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatttcttctaatattgaattgggatagcatatgtgatgtgtgaaatattgcagGAGGGCCTACAAGTGAAACACGTGGAATTTTAAATTTGAGTATCCAGTATTGGACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
ttctaat putative branch site (score: 2)
ttctaatattgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagatccatgattagctttatacattctctgaaatgaaaaggtagaatttcttctaatattgaattgggatagcatatgtgatgtgtgaaatattgcagGAGGGCCTACAAGTGAAACACGTGGAATTTTAAATTTGAGTATCCAGTATTGGACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - ccatgat
- - - - - - - - - - - -cattctc
- - - - - - - - - - - - - - - - aaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtga