Sequence
atgc intronic sequence ATGC exonic sequence...ctattatttatttatttattttattatttttgcacttcagttgcttacttatgtcatttgccagatgtatatgttgtctgattatgaaaactgttttcagGATTCTTCTGGTATATTTTGTGATAATGACAGTCTGGCAACTCTACTGGCTCTGGAACTAAAAGCTGACCTTCTTGTCTTGTTGAGTGATGTAGAGGGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G028535_T02 (Zea mays), 3'ss of exon 5
-------ctattatttatttatttat-----tttattatttttgcacttcagtt---gctta--cttatgtcatttgccagatgtatatgttgtctgattatgaaaactgttttcagGATTCTTCTGGTATATTTTGTGATAATGACAGTCTGGCAACTCTACTGGCTCTGGAACTAAAAGCTGACCTTCTTGTCTTGTTGAGTGATGTAGAGGGTC
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gtctgttttcttaattgcttctgcacggccgtacaccaaccttccaatctaataacagctgggcccttggttgtgttcctacttactactgattgtaataatgaatttaatttacagGATTCATCTGGTATATTCTGGGATAATGACAGTCTAGCAGCTCTGTTGGCAGCAGAACTTAATGCTGATCTTCTTATCATGCTTAGTGATGTGGAAGGAC
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 2
-------------------------------ctattatttatttatttattttattatttttgcac----ttcagttgcttacttatgtcatttgccagatgtatatgttgtctgattatgaaaactgttttcagGATTCTTCTGGTATATTTTGTGATAATGACAGTCTGGCAACTCTACTGGCTCTGGAACTAAAAGCTGACCTTCTTGTCTTGTTGAGTGATGTAGAGGGTC
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gtaagctgcttttccttacacaaattttcctttgtgaaaatttagtctcttttatttctcctagaaaatgttagtttgattttcttcgtcttgtgacgttaaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATATTCTGGGACAATGACAGTTTGGCTGGTCTATTGGCTCTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G40770.1 (Glycine max), 3'ss of exon 5
--------------------------ctattatttatttat-ttattttattatttttgcacttcagtt-gcttacttatgtcatttgccagatgtatatgttgtctgattatgaaaactgttttcagGATTCTTCTGGTATATTTTGTGATAATGACAGTCTGGCAACTCTACTGGCTCTGGAACTAAAAGCTGACCTTCTTGTCTTGTTGAGTGATGTAGAGGGTC
| || | | ||| | |||| || ||| | | |||| | || | ||| | || || ||| | | | | |||||| | ||||||||||||||||| || || || || |||||| |||| |||| ||||| ||||||| ||||||||||| ||||| | ||||||||||| |||||||
gtattgtgcttccttgcacaaatttacctttgtgaaaatatactctttttttctttaaaaatattagtttgattttgttggtcttgtgacattgaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATTTTCTGGGACAACGACAGTTTGGCTGGTCTATTGGCTTTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G12240.1 (Glycine max), 3'ss of exon 5
ctattatttatttatttattttattatttttgcacttcagttgcttacttatgtcatttgccagatgta-tatg---ttgtct--gattatgaaaactgttttcagGATTCTTCTGGTATATTTTGTGATAATGACAGTCTGGCAACTCTACTGGCTCTGGAACTAAAAGCTGACCTTCTTGTCTTGTTGAGTGATGTAGAGGGTC
| | || | || || ||| | | || ||||| | || || |||| || ||| ||| | | ||| | ||||||||||| ||||| || || || ||||||||| |||| |||| | || || ||||| ||||||||||| ||||| || ||||||||||| |||||||
------caaaacaagccatgccccactaggtggggtttggttacatggttggtgactttgcaatatctaatatgcggttatcttaaattgtaagtgttgtgtgcagGATTCTTCGGGTATTTTCTGGGACAATGACAGTTTGGCTGGTCTATTAGCCCTTGAACTTAAAGCTGACCTCCTTGTTTTATTGAGTGATGTTGAGGGTC
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G24530.1 (Glycine max), 3'ss of exon 5
---ctattatttatttatttattttattatttttgcacttcagttgcttacttatgtcatttgccagatgtatatgttgtctgattatgaaaactgttttcagGATTCTTCTGGTATATTTTGTGATAATGACAGTCTGGCAACTCTACTGGCTCTGGAACTAAAAGCTGACCTTCTTGTCTTGTTGAGTGATGTAGAGGGTC
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acaaaacaagccatgt-cccactaggtgggtttggctacatggttggtgactt-tgtaatatctaatacgtggctatc-ttaaattttaagcactgtgtgcagGATTCTTCCGGTATTTTCTGGGACAATGATAGTTTGGCTGGTCTATTAGCCCTTGAACTTAAAGCTGACCTCCTTGTTTTATTGAGTGATGTTGAGGGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacttatgtcatttgccagatgtatatgttgtctgattatgaaaactgttttcagGATTCTTCTGGTATATTTTGTGATAATGACAGTCTGGCAACTCTACTGGCTCTGGAACTAAAAGCTGACCTTCTTGTCTTGTTGAGTGATGTAGAGGGTC
ctgttttc CT-rich tract
attatgaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctattatttatttatttattttattatttttgcacttcagttgcttacttatgtcatttgccagatgtatatgttgtctgattatgaaaactgttttcagGATTCTTCTGGTATATTTTGTGATAATGACAGTCTGGCAACTCTACTGGCTCTGGAACTAAAAGCTGACCTTCTTGTCTTGTTGAGTGATGTAGAGGGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - cacttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - catttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgaaaa