Sequence
atgc intronic sequence ATGC exonic sequencegtaggatacttttgtaaacctgttgcagttgacacttttctttgtttaacaacacttttgttacatcttacacatctactttagttttgggatggtaacagTCCATATTACAATATTGAGCTCAAGGAAATACATGTTGCTGGGAAGCCATTGAAATTAAGCCCAAGTACCTTTGATAGAAAGCATGGAACAGTCCTGGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g09470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g40260.2 (Oryza sativa), 3'ss of exon 3
gtaggatacttttgtaaacctgttgcagttgac-----acttttct------ttgtttaacaacacttttgt---------tacatcttacacatctact--ttagttttgggatggtaacagTCCATATTACAATATTGAGCTCAAGGAAATACATGTTGCTGGGAAGCCATTGAAATTAAGCCCAAGTACCTTTGATAGAAAGCATGGAACAGTCCTGGAT
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gtattatacatttttgttttttccacaccagactgaagattcttttagtagcctgctggaggaaggttttctaatgttctgtatatttaatacatttccttattaattttggattgtcaacagCCCGTATTACAACATTGAGTTAAAGGAAATACATGTTGCCGGAAAGGCATTGCGGTTAGACCCAAAGATATTCAACAGCAAACATGGCACTGTCTTAGAT
upper sequence: Vv18s0001g09470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G090715_T01 (Zea mays), 3'ss of exon 3
gtaggatacttttgtaaacctgttgcagttgacacttt-tctttgtttaacaacacttttgttacatcttacacatctactttagttttgggatggtaacagTCCATATTACAATATTGAGCTCAAGGAAATACATGTTGCTGGGAAGCCATTGAAATTAAGCCCAAGTACCTTTGATAGAAAGCATGGAACAGTCCTGGAT
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--------gtattgtataatt-tcctatatgataatcgatccttatt-----atttttgtggtacatatttt-tattagct--aactttaaactggcaacagTCCATATTACAACATTGAGTTAAAGGAAATACATGTTGCTGGAAAGGCACTGCGGGTAGATTCAAGGATCTTTGACAGCAAGCATGGGACTGTTTTGGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taacaacacttttgttacatcttacacatctactttagttttgggatggtaacagTCCATATTACAATATTGAGCTCAAGGAAATACATGTTGCTGGGAAGCCATTGAAATTAAGCCCAAGTACCTTTGATAGAAAGCATGGAACAGTCCTGGAT
atcttac putative branch site (score: 3)
tttagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggatacttttgtaaacctgttgcagttgacacttttctttgtttaacaacacttttgttacatcttacacatctactttagttttgggatggtaacagTCCATATTACAATATTGAGCTCAAGGAAATACATGTTGCTGGGAAGCCATTGAAATTAAGCCCAAGTACCTTTGATAGAAAGCATGGAACAGTCCTGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA