Sequence
atgc intronic sequence ATGC exonic sequence...tgtccagactgttgaggttttacttacctgtcatatagtctttttttttttttcactcactctattcatttaattatattttttatttgataatgtgcagGAAGTACTTGTCATTCGCAAGATTCATCCATGTTTGCCATCTTTTAAGGCAGAATTTACTGCATCTGTTCCCCTGACTCGAATTAGAGATATTGCTCATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0062g00890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g20150.1 (Oryza sativa), 3'ss of exon 4
------tgtccagactgttgaggttttacttac-ctgtcatatagtctttttttttttttcactcactctattcatttaattatattttttatttgataatgtgcagGAAGTACTTGTCATTCGCAAGATTCATCCATGTTTGCCATCTTTTAAGGCAGAATTTACTGCATCTGTTCCCCTGACTCGAATTAGAGATATTGCTCATC
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ctagttcagccctactctcgagcacattctggctctgccagactaacatttggg-------aaaaggtatatctattatttgccaacttccaattatgtttgtgcagGATGTTCTCGTGATTCGCAAAATTCATCCCTTTTTACCTTCATTTAAGTCAGAGTTTACAGCCTCTGTCCCTCTAACACGAATTCGTGATATTGCTCACC
upper sequence: Vv05s0062g00890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G44540.1 (Glycine max), 3'ss of exon 3
tgtccagactgttgaggttttacttacctgtcatatagtctttttttttttttcactcactctattcatt--taattatattttttat----ttgataatgtgcagGAAGTACTTGTCATTCGCAAGATTCATCCATGTTTGCCATCTTTTAAGGCAGAATTTACTGCATCTGTTCCCCTGACTCGAATTAGAGATATTGCTCATC
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------ggttgttgatataatatttctttgccaccttttctatcttactgtccaataaattttatgccttacttctttcatttgccataatttcatcaacatacagGAAGTTCTAGTCATTCGTAAGATTCATCCATGTTTGCCATCTTTCAAGGCTGAATTCACTGCATCTGTTCCTCTTACTCGAATTAGAGACATTGCTCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttttcactcactctattcatttaattatattttttatttgataatgtgcagGAAGTACTTGTCATTCGCAAGATTCATCCATGTTTGCCATCTTTTAAGGCAGAATTTACTGCATCTGTTCCCCTGACTCGAATTAGAGATATTGCTCATC
tcactctattcattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtccagactgttgaggttttacttacctgtcatatagtctttttttttttttcactcactctattcatttaattatattttttatttgataatgtgcagGAAGTACTTGTCATTCGCAAGATTCATCCATGTTTGCCATCTTTTAAGGCAGAATTTACTGCATCTGTTCCCCTGACTCGAATTAGAGATATTGCTCATC
- - - - ctgttga
- - - - - - - - - - - - - cctgtca