Sequence
atgc intronic sequence ATGC exonic sequence...taatagttttcaattttttatattataattcttgatactttgctaaggagtcaaagattactcaaatattgtaatgttgtacttgatcaacctaatacagATTGCTACATTCTTGGTGTATTTGTCTGATGTTGAAGAAGGTGGGGAAACCATGTTCCCATTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g55380.1 (Oryza sativa), 3'ss of exon 5
-------------------------------------------------------------------------------------------taatagttttcaattttttatattataattcttgatactttgctaaggagtcaaagatt--actcaaatattg-taatgttgtacttgatcaacctaatacagATTGCTACATTCTTGGTGTATTTGTCTGATGTTGAAGAAGGTGGGGAAACCATGTTCCCATTTGAG
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gtatgctcctacatttgcttgcattttgcctaacctatatttctcggttctagatgtcttgaagattgggctctttttgttatttatgtgaacagaggtgctaagtctgcttaatggaccactagatagaataatttaggttgaatgatttgacaagaatatagctaaggaactattgaaatgcaaattttcagGTCGCGTCTTTCTTGCTTTATCTCACGGATGTTGAAGAAGGCGGAGAAACCATGTTCCCATATGAG
upper sequence: Vv07s0129g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G22270.2 (Glycine max), 3'ss of exon 5
--taatagt-tttcaattttttata-ttataattcttgatactttg--ctaaggagtcaaagattactcaaatattgtaatgttgtacttgatcaacctaatacagATTGCTACATTCTTGGTGTATTTGTCTGATGTTGAAGAAGGTGGGGAAACCATGTTCCCATTTGAG
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ttcaatagcattttgatcataagcagttttaccacagaataacttgcgccaaacatttaatgagat----aatttcttaacttcagttttggttaacc--atgcagATGGCGTCATTTTTGCTATATTTAACTGATGTTGAGGAAGGTGGGGAAACTATGTTTCCATTTGAG
upper sequence: Vv07s0129g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G17810.1 (Glycine max), 3'ss of exon 5
-taatagt-tttcaattttttata-ttataattcttgatactttgctaaggagtcaaagattactcaaatattgtaatgttgtacttgatcaacctaatacagATTGCTACATTCTTGGTGTATTTGTCTGATGTTGAAGAAGGTGGGGAAACCATGTTCCCATTTGAG
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tcaatagcattttgatcataaacagttttaccacagaataacttacgccaaacacatttatgagatcatttct-tagcttcagttttggttaacc--atgcagATGGCATCATTTTTGCTATATTTAACTGATGTTGAGGAAGGTGGGGAAACTATGTTTCCATTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggagtcaaagattactcaaatattgtaatgttgtacttgatcaacctaatacagATTGCTACATTCTTGGTGTATTTGTCTGATGTTGAAGAAGGTGGGGAAACCATGTTCCCATTTGAG
acctaat putative branch site (score: 3)
aaatattgtaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatagttttcaattttttatattataattcttgatactttgctaaggagtcaaagattactcaaatattgtaatgttgtacttgatcaacctaatacagATTGCTACATTCTTGGTGTATTTGTCTGATGTTGAAGAAGGTGGGGAAACCATGTTCCCATTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaatat