Sequence
atgc intronic sequence ATGC exonic sequence...agataaattgaaattaaaattgaattatttcattttcatatggggtcatgatgccattattaatatgatgcttcatgaaatatttattcatgtcatgcagGTTTCTGCAGAAAAACCAGAGTACTTTCTTCCTTTCTGCCTACGAGGGCTCTAAATCTTCTGAAGGAAGTGGTAGGGGAAAAGGCTGACTGAGCCAGTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os04g01130.1 (Oryza sativa), 3'ss of exon 10
---agataaattgaaattaaaattgaattatttcattttcatatggggtcatgatgccattattaatatgatgcttcatgaaatatttattcatgtcatgcagGTTTCTGCAGAAAAACCAGAGTACTTTCTTCCTTTCTGCCTACGAGGGCTCTAAATCTTCTGAAGGAAGTGGTAGGGGAAAAGGCTGACTGAGCCAGTGG
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cataattttagttacatgcttaccagattgtagcaatccctgatag--tta-ggcatacttaaagccaaaatgcttactaaaccaatttggaattcatggtagGTTTCTGCAGAAGAACCAGAGTTCGTTCTTCCTTTCTGCGTATGATGGTGGT------TCTAAAG-----------------------------------
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os11g34305.1 (Oryza sativa), 3'ss of exon 10
---agataaattgaaattaaaattgaattatttcattttcatatggggtcatgatgccattattaatatgatgcttcatgaaatatttattcatgtcatgcagGTTTCTGCAGAAAAACCAGAGTACTTTCTTCCTTTCTGCCTACGAGGGCTCTAAATCTTCTGAAGGAAGTGGTAGGGGAAAAGGCTGACTGAGCCAGTGG
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cataattttaatcacgtgctaaccagattgtagcaatccctgatag--ttaggcatactttat-gccaaaatgctcactaaatcaattgggaattcatggtagGTTTCTGCAGAAGAATCAGAGTTCGTTCTTCCTTTCTGCGTATGATGGTGGT------TCTAAAG-----------------------------------
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os11g34300.2 (Oryza sativa), 3'ss of exon 10
---agataaattgaaattaaaattgaattatttcattttcatatggggtcatgatgccattattaatatgatgcttcatgaaatatttattcatgtcatgcagGTTTCTGCAGAAAAACCAGAGTACTTTCTTCCTTTCTGCCTACGAGG---GCTCTAAATCTTCTGAAGGAAGTGGTAGGGGA-AAAGGCTGACTGAGCCAGTGG
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cataattttaatcacgtgctaaccagattgtagcaatccctgatag--ttaggcatactttat-gccaaaatgctcactaaatcaattgggaattcatggtagGTTTCTGCAGAAGAATCAGAGTTCGTTCTTCCTTTCTGCGTATGATGGTGGTTCTAAAGGTACTGATGGGATAAAGACCAAATAGAAGCAAACTGTTGCA---- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatgatgccattattaatatgatgcttcatgaaatatttattcatgtcatgcagGTTTCTGCAGAAAAACCAGAGTACTTTCTTCCTTTCTGCCTACGAGGGCTCTAAATCTTCTGAAGGAAGTGGTAGGGGAAAAGGCTGACTGAGCCAGTGG
tattaat putative branch site (score: 2)
ttcatgaaatatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agataaattgaaattaaaattgaattatttcattttcatatggggtcatgatgccattattaatatgatgcttcatgaaatatttattcatgtcatgcagGTTTCTGCAGAAAAACCAGAGTACTTTCTTCCTTTCTGCCTACGAGGGCTCTAAATCTTCTGAAGGAAGTGGTAGGGGAAAAGGCTGACTGAGCCAGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
agataaa
- - -aattgaa
- - - - - aaattaa
- - - - - - - - - - - - - - - - - - - - - -ggtcatg
- - - - - - - - - - - - - - - - - - - - - - - - - atgccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttcatg