Sequence
atgc intronic sequence ATGC exonic sequence...ctgcattagattgcctctattaaaacatcattcactctagtatccagttattactattttttcttttgttgtgataatactgtattgtcaccatctccagTTGAGGAATACGAGAGGTCATGGGAGCAGAATGAGGAGCTGGGTCTTAATGATATGGACACTTCTTCAGCAGATGCCGCATACAACTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g01690.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA20G02690.1 (Glycine max), 3'ss of exon 15
-ctgcattagattgcctctattaaaacatcattcactctagtatccagttat-tactattttttcttttgttgtgataatactgtattgtcaccatctccagTTGAGGAATACGAGAGGTCATGGGAGCAGAATGAGGAGCTGGGTCTTAATGATATGGACACTTCTTCAGCAGATGCCGCATACAACTGA-----------
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gatgaatgggtttaatgcaattcagat-tgtttagaattgttggcatgttatctacacttagctgcatagtttttcgtgtaa-atatattcatgtcttacagTTGAGGAATACGAGAGGTCATGGGAACAAAATGAAGAATTAGGTCTGAATGATATAGACACCTCTTCTGCCGATGCTGCTTATGAATCAACAAATACTAC
upper sequence: Vv01s0011g01690.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA07G34890.3 (Glycine max), 3'ss of exon 9
ctgcattagattgcc-tctat-taaaacatcattcactctagtatccagttattactattttttcttttgttgt--gataatactgtattgtcaccatctccagTTGAGGAATACGAGAGGTCATGGGAGCAGAATGAGGAGCTGGGTCTTAATGATATGGACACTTCTTCAGCAGATGCCGCATACAACTGA-----------
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---tgttggcctgttatctacacttggctgcatagtttttcatgtaaatatattcatgtcttacagttttctgtttggcaattttgtcacgatatc-tcttcagTTGAGGAATACGAGAGGTCATGGGAACAAAATGAAGAATTAGGTCTGAATGATATAGACACCTCTTCTGCCGATGTTGCTTATGAATCAACAAATACTAC
upper sequence: Vv01s0011g01690.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA07G34890.2 (Glycine max), 3'ss of exon 9
------------------------------ctgcattagattgcct-ctattaaaacatcatt---cactctagtatccagttattactatttttt----cttttgttgtgataatactgtattgtcaccatctccagTTGAGGAATACGAGAGGTCATGGGAGCAGAATGAGGAGCTGGGTCTTAATGATATGGACACTTCTTCAGCAGATGCCGCATACAACTGA
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gagctatatgtatgatataattctgatcgtttagaattgttggcctgttatctacacttggctgcatagtttttcatgtaaatatattcatgtcttacagTTTTCTGTTTGGCAATTTTGTCACGATATC-TCTTCAGTTGAGGAATACGAGAGGTCATGGGAACAAAATGAAGAATTAGGTCTGAATGATATAGACACCT--------------------------
upper sequence: Vv01s0011g01690.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT5G22480.1 (Arabidopsis thaliana), 3'ss of exon 16
-----------------------------------------------------------------------------------------------ctgcattagattgcctctat-taaaacatcattcactctagtatccagttattactattttttcttttgttgtgataa-tactgtattgtcaccatctccagTTGAGGAATACGAGAGGTCATGGGAGCAGAATGAGGAGCTGGGTCTTAATGATATGGACACTTCTTCAGCAGATGCCGCATACAACTGA-----------
| || | | | |||| | | ||| || | | ||| || || ||| | | || | ||| ||| | || ||||||| || ||||||||||||||||| || || |||||| ||||||| || || || || ||||||||||| ||||| || || | |
gtaagttactcgtttaccctgcctatgtagccttaagtgggatatgaatacgaactaaacaaatattcagacttatccattcctttcttgatgaattttataatgaaactgagacataaattaggactcaatcaatatgtgaattaggacaggacttgggttttgaataacaagttttgttatgtt-tgaactacagTTGAAGAGTACGAGAGGTCATGGGATCAAAACGAGGAGTTGGGTCTCAACGACATAGATACTTCTTCAGCTGATGCTGCTTATGAATCCACAGAGACGAC
upper sequence: Vv01s0011g01690.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT5G37340.1 (Arabidopsis thaliana), 3'ss of exon 16
ctgcattagattgcctctattaaaacatcattcactctagtatccagttattactattttttcttttgttgtgataatactgtattgtcacc--atctccagTTGAGGAATACGAGAGGTCATGGGAGCAGAATGAGGAGCTGGGTCTTAATGATATGGACACTTCTTCAGCAGATGCCGCATACAACTGA-----------
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ctgtataatgaaatcgac-ttgaattaggagtgaatatgtcaattaga-actggagtcttggggttcaagtaacaaatgttgttgtgttttttaaactacagTTGAAGAGTACGAGAGATCATGGGAGCAAAACGAGGAGTTGGGTCTCAACGACATTGATACTTCTTCAGCTGATGCTGCTTATGAGTCCACAGAGCCAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttattactattttttcttttgttgtgataatactgtattgtcaccatctccagTTGAGGAATACGAGAGGTCATGGGAGCAGAATGAGGAGCTGGGTCTTAATGATATGGACACTTCTTCAGCAGATGCCGCATACAACTGA
ccatctcc CT-rich tract
ttactattttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgcattagattgcctctattaaaacatcattcactctagtatccagttattactattttttcttttgttgtgataatactgtattgtcaccatctccagTTGAGGAATACGAGAGGTCATGGGAGCAGAATGAGGAGCTGGGTCTTAATGATATGGACACTTCTTCAGCAGATGCCGCATACAACTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
ctgcatt
- - - - - -tgcctct
- - - - - - - - - - -aaaacat
- - - - - - - - - - - - - - cattcac
- - - - - - - - - - - - - - - - - - - -gtatcca