Sequence
atgc intronic sequence ATGC exonic sequence...gaagtctttatttcagtcaaaaaaattacaatcaagttcatcatgttgcatgctttctctttttaattttcttacaagtttatttattttataactgcagGTGAAGTACAGTGTGAGCAACCAAACAATTCATTGTACACATTCACTGGAAATCTTATAATCCAAAAGCAAACTTTACCCCTCAGTCCAAATCAAATACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM5G865576_T01 (Zea mays), 3'ss of exon 7
-----gaagtctttatttc--agtcaaaaaaattacaa---tcaagttcatcatgttgcatgctttctctttttaattttcttacaagtt-----------tatttattttata-------actgcagGTGAAGTACAGTGTGAGCAACCAAACAATTCATTGTACACATTCACTGGAAATCTTATAATCCAAAAGCAAACTTTACCCCTCAGTCCAAATCAAATACT
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gtttggtgccttttattttctgattattgaagctgtgtctttctggcttaactccacatttgtttgtcctgtttatgtgccttggaaattggaattcttcatatttaacttagacaaatggcttacagGTGAAGTGCAGTGTGAACAACCAAACAATTCCCTTTATACGTTTACTGGCAATCTTATCATGGACAAGCAGACTATACCTCTCTCACCGAACCAGTTACT
upper sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G326677_T01 (Zea mays), 3'ss of exon 6
-------gaagtctttatttcagtcaaaaaaattacaatcaagttcatcatgttgcatgct------ttctctttttaattttcttacaagttt----atttatttta--taa-----ctgcagGTGAAGTACAGTGTGAGCAACCAAACAATTCATTGTACACATTCACTGGAAATCTTATAATCCAAAAGCAAACTTTACCCCTCAGTCCAAATCAAATACT
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gtttgttgccttctattttctgattaaggaagctgtgtctttttttgcttaacttcacattagtttgccctgtttttttgtgtcttggaattcttcatatttaacttagataaacgatctacagGTGAAGTGCAGTGTGAACAGCCAAACAATTCCCTTTATACTTTTACTGGCAATCTTATCATGGACAAGCAAACTATACCCCTCTCACCGAACCAGTTACT
upper sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G40530.1 (Glycine max), 3'ss of exon 7
---------gaagtctttatttcagtcaaaaaaattacaatcaagttcatcatgttgcatgctttctctttttaattttcttacaagtttatttattttataactgcagGTGAAGTACAGTGTGAGCAACCAAACAATTCATTGTACACATTCACTGGAAATCTTATAATCCAAAAGCAAACTTTACCCCTCAGTCCAAATCAAATACT
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acgtctatgcaagacttgtttattattaggttgatgaatgctaaatttgatttcttgcttg-----tctgttccaagttatgacaagttttctaactatgt----gcagGTGAAATTGAATGTGAGCAACCAAACAATTCATTGTATACCTTTACTGGAAATCTTATAACTCAAAAGCAAACACTGCCTCTCAGTCCAAATCAAATCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcatgctttctctttttaattttcttacaagtttatttattttataactgcagGTGAAGTACAGTGTGAGCAACCAAACAATTCATTGTACACATTCACTGGAAATCTTATAATCCAAAAGCAAACTTTACCCCTCAGTCCAAATCAAATACT
ttataac putative branch site (score: 2)
tttctctttttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaagtctttatttcagtcaaaaaaattacaatcaagttcatcatgttgcatgctttctctttttaattttcttacaagtttatttattttataactgcagGTGAAGTACAGTGTGAGCAACCAAACAATTCATTGTACACATTCACTGGAAATCTTATAATCCAAAAGCAAACTTTACCCCTCAGTCCAAATCAAATACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - caatcaa
- - - - - - - - - - - - - - - - - - - catcatg