Sequence
atgc intronic sequence ATGC exonic sequence...aactattaagtcaaaaagatatgttgatcaattttaaggtggcaggaaactttagactttgataactgggaaggacatgtattaacatattttgtggcagGATGGGAAGATTTCCCCCGGTTGTGAGGACAGCAGTACCTGTAGATGGGAGGTTTGAGCGTATTGTTCTTTCTTGTAATGCCACTTCTGACCATGCTATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g00620.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G30140.1 (Glycine max), 3'ss of exon 4
aactattaagtcaaaaagatatgttgatcaattttaaggtggcaggaaactttagac--tttgataactgggaaggacatg--tattaacatattttgtg-gcagGATGGGAAGATTTCCCCCGGTTGTGAGGACAGCAGTACCTGTAGATGGGAGGTTTGAGCGTATTGTTCTTTCTTGTAATGCCACTTCTGACCATGCTATC
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---ttcttgcacaataaaatatgttaac--atggtcatgtaaaaaggatgtctatacaaccttttctttaggcctcgcctgaacatttaaacgtcttatatgcagAATGGGAAGGTTTCCCCCAGTAGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAGCATATAGTCCTTTCTTGTAATGCCACATCTGATCATGCCATC
upper sequence: Vv16s0050g00620.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G25180.1 (Glycine max), 3'ss of exon 4
aactattaagtcaaaaagatatgttgatcaattttaaggtggcaggaaactt-tagactttgataactgggaaggacatgtatta--acatattttgtg-gcagGATGGGAAGATTTCCCCCGGTTGTGAGGACAGCAGTACCTGTAGATGGGAGGTTTGAGCGTATTGTTCTTTCTTGTAATGCCACTTCTGACCATGCTATC
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---tcttgca-caataaaatatgttaacatggttgaggttaaaaggatgtttatacagccttttctttaggccatgcctgaacttctaaacgtcttatatgcagAATGGGAAGGTTCCCCCCAGTAGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAGCATATAGTCCTTTCTTGTAATGCCACATCTGATCATGCCATC
upper sequence: Vv16s0050g00620.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G37820.1 (Glycine max), 3'ss of exon 3
aactattaagtcaaaaagatatgttgatcaattttaaggtggca-ggaaactttagactttgataactgggaaggacatgtattaacatattttgtggcagGATGGGAAGATTTCCCCCGGTTGTGAGGACAGCAGTACCTGTAGATGGGAGGTTTGAGCGTATTGTTCTTTCTTGTAATGCCACTTCTGACCATGCTATC
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tgtttttatggtcttgtt-tattccgttggaacatatgctaatacggttaaaagatgtttttataacttttacttctggctttcacattaactctatgcagAATGGGAAGGTTTCCCCCAGTTGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAACACATAGTGCTTTCTTGCAATGCCACATCTGATCATGCCATT
upper sequence: Vv16s0050g00620.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G49050.1 (Arabidopsis thaliana), 3'ss of exon 3
aactattaagtcaaaaagatat-gttgatcaattttaaggtggcaggaaactttagactttgata-actgggaaggacatgtattaaca-tattttgtggcagGATGGGAAGATTTCCCCCGGTTGTGAGGACAGCAGTACCTGTAGATGGGAGGTTTGAGCGTATTGTTCTTTCTTGTAATGCCACTTCTGACCATGCTATC
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-gccattacattgaagacaaatcatagttttgctctgtgat--catcgtgtgatagagctaaatctgttgtgaagatgacgttttggtaattggttcttgcagATTAGGAAGATATCCTCCGGTTGTGAAGACAGCAGTGCCGGTAGATGGAAGATTCGAACACATTGTTCTTTCTTGTAACGCAACTTCAGACCACGCCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaactttagactttgataactgggaaggacatgtattaacatattttgtggcagGATGGGAAGATTTCCCCCGGTTGTGAGGACAGCAGTACCTGTAGATGGGAGGTTTGAGCGTATTGTTCTTTCTTGTAATGCCACTTCTGACCATGCTATC
tattaac putative branch site (score: 1)
atgtattaacatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactattaagtcaaaaagatatgttgatcaattttaaggtggcaggaaactttagactttgataactgggaaggacatgtattaacatattttgtggcagGATGGGAAGATTTCCCCCGGTTGTGAGGACAGCAGTACCTGTAGATGGGAGGTTTGAGCGTATTGTTCTTTCTTGTAATGCCACTTCTGACCATGCTATC
- - - - - - aaaaaga
- - - - - - - - - - - - - - - - - - - - -gcaggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggacatg