Sequence
atgc intronic sequence ATGC exonic sequence...aattctactgtcatggattcttgtgaaatttttttacctagaatgtgcaaatcagaattctaagtgtgccaattttctcccttttacattgttttgccagGTTGCTGGAGCTGAAGCACTTGTGATTAGAGTTGTCTCATCAGTTGACAAAAAGTTGGAAGTGAAGCAGCGGTTCCTTGAAATTTTTCAAGAAGAGAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G00230.1 (Glycine max), 3'ss of exon 8
aattctactgtcatggattcttgtgaa---atttttttacctagaatgtgcaaatcagaattctaagtg---tgccaattttctcccttttacattgttttgccagGTTGCTGGAGCTGAAGCACTTGTGATTAGAGTTGTCTCATCAGTTGACAAAAAGTTGGAAGTGAAGCAGCGGTTCCTTGAAATTTTTCAAGAAGAGAATT
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------gcttttaatgtttcttggatattgattattacacttgttgctagcatatcctggttttctatggattactaatttcatattcgcttggatgtgttgtcagATTCCTGGAGCTGAAGCTCTTGTTATAAGAGTTGTGTCATCTGTTGACAAAAAGTTAGAAGTGAAACCGCGGTTTCTGGAGATTTTTCAGGAAGAGAATT
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 10
aattctactg--tcatggattcttgtgaa-atttttttacctagaatgtgcaaatcagaattcta-agtgtgccaattttctcccttttacattgttttgccagGTTGCTGGAGCTGAAGCACTTGTGATTAGAGTTGTCTCATCAGTTGACAAAAAGTTGGAAGTGAAGCAGCGGTTCCTTGAAATTTTTCAAGAAGAGAATT
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ttttttaatgtttcttggatattgattattacactcgttgctagcatatcctggtt----ttctatggattactaatttcatattcacttggatgtgttgccagATTCCTGGGGCTGATGCTCTTGTTGTAAGAGTTGTGTCATCTGTTGACAAAAAGTTAGAAGTGAAACCGCGGTTTCTGGAGATTTTTCAGGAAGAGAATT
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 8
--aattctactgtca--tggattcttgt---gaaatttttttacctagaatgtgcaaatcagaattctaagtgtgccaattttctcccttttacattgttttgccagGTTGCTGGAGCTGAAGCACTTGTGATTAGAGTTGTCTCATCAGTTGACAAAAAGTTGGAAGTGAAGCAGCGGTTCCTTGAAATTTTTCAAGAAGAGAATT
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atgattaaactcctaactggtttcctgcagagaaagaattccatttggtgcgtgtttat--gctttggttatatataaaacat-----ttttaattgatgttaccagGTGCCTGGAGCTGAAGCTCTTGTTATAAGAGTTGTGTCATCTGTAGACAAGAAGTTAGAAGTTAAACAGAGGTTTTTGGAGATTTTTCAGGAAGAAAATT
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G79000.2 (Arabidopsis thaliana), 3'ss of exon 9
----------------------------------------------------------aattctactgtcatggattcttgtgaaatttttttacctagaatgtgc--aaatcagaattctaagtgtgccaattttctcccttttacattgttttgccagGTTGCTGGAGCTGAAGCACTTGTGATTAGAGTTGTCTCATCAGTTGACAAAAAGTTGGAAGTGAAGCAGCGGTTCCTTGAAATTTTTCAAGAAGAGAATT
| ||| | | || | | || | || | | || || ||| || | | || | | || | |||| || | | ||| || | || || | ||||||||||||||||| ||||| |||||||| ||| ||||||| || | || || ||||||||||||| || || | ||
gtaatttaatggtggagtttgttaacgtttatttctttcatttattttcacatctgcaagctctttatttttatttttctatttgtttgatctagtgattctttgttagaaacagtatattgaagctgactttgttttttctttgacttgatacgaacagATTCCCACTGCCGAGTCCCTTGTGATTAGAGTTGTTTCATCTGTTGACAAGAAGCTGGAAGTCAAACCTCGATTTCTTGAAATTTTTCGGGAGGATAGTT
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S462_17V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------------------------------------------------------------aattctactgtcatggattcttgtgaaatttttttacctagaatg-------tgcaaatcagaa-------ttctaagtgtgccaattttctc----ccttttacattgttttgccagGTTGCTGGAGCTGAAGCACTTGTGATTAGAGTTGTCTCATCAGTTGACAAAAAGTTGGAAGTGAAGCAGCGGTTCCTTGAAATTTTTCAAGAAGAGAATT
|||| || | || || | ||||| | | || || ||| || || || | || |||| | | | | | ||| | | ||||||| | || || || | ||| |||||||||| || || || ||||| ||| ||||||||||||| |||||| | ||| ||||||||| ||| ||
gtacttgcatgtgcttttccagttactgtagttattctataattttttgtttcaagttttgtaatcgaattcttaagttttattcaacc-ttattcatgactatgaaaaaataaaaaataaaaaaacaatgctgcctctctgacagcgctcttttgtatgctttaattctaacaagtcatatgacactatgaatgtagGTTGCCAGTGCAGAGGCTTTGGTGGTTAGAGTTGTATCCTCCGTGGACAAGAAGCTGGAAGTGAAGCAACGGTTCTTGGAAGTTTTTCAAGGAGATTATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcaaatcagaattctaagtgtgccaattttctcccttttacattgttttgccagGTTGCTGGAGCTGAAGCACTTGTGATTAGAGTTGTCTCATCAGTTGACAAAAAGTTGGAAGTGAAGCAGCGGTTCCTTGAAATTTTTCAAGAAGAGAATT
ttttctcccttttaca CT-rich tract
ttttacattgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattctactgtcatggattcttgtgaaatttttttacctagaatgtgcaaatcagaattctaagtgtgccaattttctcccttttacattgttttgccagGTTGCTGGAGCTGAAGCACTTGTGATTAGAGTTGTCTCATCAGTTGACAAAAAGTTGGAAGTGAAGCAGCGGTTCCTTGAAATTTTTCAAGAAGAGAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - -ctgtcat
- - - - - - - - - - - - - - - - - - - - gaatgtg
- - - - - - - - - - - - - - - - - - - - - - - - -aatcaga