Sequence
atgc intronic sequence ATGC exonic sequence...cataggaatagaactggctactggaaattttcattttttgtgctctatttcagtttgttttttgagttgaggttaaaatggactgatttttcttttgcagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G03950.1 (Glycine max), 3'ss of exon 9
cataggaatagaact---ggctactggaaattttcattttttgtgctctatttcagtttgttttttgagttgaggttaaaatggactgatttttcttttgcagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA
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tgttagtgttaagttgatggctattgacaaat--cataataggtacatgata-cagtatagtttttttatggaattattaatggtgtgtttctttctctgcagAATGATTTGAAGGAACTCTGGTCTCTCTTAAATTTACTTCTTCCTGAAGTTTTTGATAATAAGAAAGCCTTCAATGATTGGTTTTCGAAACCATTTCAAA
upper sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G07550.1 (Glycine max), 3'ss of exon 8
cataggaatagaactggctactggaa-attttcattttttgtgctctatttcagtttgttttttgagttgaggttaaaatggactgatttttcttttgcagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA
| | || | | | | || | | | | | | |||||| | || | ||||| || || || | |||||||||| |||| ||||||||||| || ||||| | |||||||||||||| ||||| ||| ||||| || |||||||||| |||||||| |||||||
-gtcaggatcgctcaaattgtgagtctatggacggtcaggatcgctcaaacgatataattttttttatggaattattaatggtgtgtttctttctctgcagAATGATTTGAAGGAACTCTGGTCTCTCTTAAATTTACTTCTTCCTGAAGTTTTTGATAATAAGAAAGCCTTCAATGATTGGTTCTCGAAACCATTTCAAA
upper sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G46930.1 (Glycine max), 3'ss of exon 8
------cataggaatagaactggctactggaaattttcattttttgtgctctatttcagtttgttttttgagttgaggttaaaatggactgatttttcttttgcagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA
|||| | | || | | || || | ||| ||| | | | |||| | | |||| | | ||||| ||||| | |||||||||| |||| ||||| ||||||||| ||||| | |||||||| || || ||||||||| ||||| ||| | ||||||||||| || || |||||||
ttttaatgtaggtgtcacattgtcaattgataaatca---tttatgtaca-tggtgcagtaaatatcttgataaaatttattaatggtgcaattttc--tctgcagAATGATTTGAAGGAACTGTGGTCGCTTTTAAATTTACTTCTTCCAGAGGTTTTTGACAATAAGAAAGCCTTTAACGATTGGTTTTCAAAGCCATTTCAAA
upper sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G46020.2 (Arabidopsis thaliana), 3'ss of exon 9
----------------------cataggaatagaactggctac-tggaaattttcattttttgtgctctatttcagtttgttttttgagttgaggttaaaatggactgatttttcttttgcagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA
| | || ||| | | || | | || | | | | || || || || | ||| || | ||| | |||||||| || |||||||| || ||||| || | || || || |||||||| || ||||||||||||||||| ||||||||||||||| || |||| |||||||
gttggtaatagctgtatagctacttgggcataaatcaggacatataacaaatggaaaccaagattgtataagctgtttacattatttgactattcttatcctgcttttattaaa-tcttgcagAACGATCTGAAAGAGCTTTGGTCACTATTGAACCTTCTCCTTCCTGATGTCTTTGACAATCGAAAAGCATTTCATGATTGGTTTGCGCAACCCTTTCAAA
upper sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S25_252V6.1 (Physcomitrella patens), 3'ss of exon 11
--------cataggaata----gaactggctactggaaattttcattttttgtgctctatttca-gtttgttt---------tttgagttgaggttaaaatg-----gactgatttttcttttgcagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA
||||| | || ||| || || || | || | | ||| ||| || | | |||||| || | || | || ||| | | | |||||||||||| || | || || ||||||||||| |||||||| || |||||||| |||||||| | || || |||||||| |||||||||||||| ||||| |
gtatatgtcatagtgctctttcgatctgtcttcttgacaattgggatctatgt-ctccatctaacgtttgtccaacatcatacatggcattttgtcaccgtgctgatgacggttggtatctttgcagAATGATCTTCATGAGCTGTGGTCGCTTCTTAATCTGCTACTCCCTGAAGTATTTGACAACAGTAAGGCATTTCATGAGTGGTTTTCGAAACCCTTTCAGA
upper sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ33371 (Selaginella moellendorffii), 3'ss of exon 5
cataggaatagaactggctactggaaattttcattttttgtgctctatttcagtttgttttttgagttgaggttaaaatggactgatttttcttttg-cagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA
|| | | | || | | | | | | || | | || | | || ||||| || || | || || ||||| ||| ||||||| || ||||||||||| |||||||| | ||||||||||| || ||||| || || || || ||||
---------------------------------------gtaaga-gtattggcttttatactatctaaatacttaagttatttttttggttgtatgtcagAACGATCTACATGAGCTGTGGTCACTTTTAAATCTACTCCTTCCTGAAGTCTTTGACAACAGTAAAGCTTTTCACGACTGGTTCTCAAAGCCATTCCAAA
upper sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ30636 (Selaginella moellendorffii), 3'ss of exon 5
cataggaatagaactggctactggaaattttcattttttgtgctctatttcagtttgttttttgagttgaggttaaaatggactgatttttcttttg-cagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA
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---------------------------------------gtaaga-gtattggtttttatactatctaaatacttaagttatttttttggttgtatgtcagAACGATCTACATGAGCTGTGGTCGCTTTTAAATCTACTCCTTCCTGAAGTCTTTGACAACAGTAAAGCTTTTCACGACTGGTTCTCAAAGCCATTCCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttcagtttgttttttgagttgaggttaaaatggactgatttttcttttgcagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA
gactgat putative branch site (score: 3)
ctgatttttctttt CT-rich tract
atttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cataggaatagaactggctactggaaattttcattttttgtgctctatttcagtttgttttttgagttgaggttaaaatggactgatttttcttttgcagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA
- - - aatagaa
- - - - - - - - gctactg
- - - - - - - - - - - - - - - - - - tttgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgga