Sequence
atgc intronic sequence ATGC exonic sequencegtgattttctctctcattatttaacaaactaattacaattgatgtagtttccctttgatgaacgttgattctactgccaatccatgagaatgcattcatgttctaattttaatttatttaactgcatgcagGCTGCTAACTGGCTCGATTCTGGCTCATGAGATGATGCATGCTTACCTCCGACTTAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g42820.4 (Oryza sativa), 3'ss of exon 12
--------------------------gtgattttctctctcattatt----taacaaactaattacaattgatgtagtttccctttg--atgaacgttgattcta--------ctgccaatccatgagaatgcattcat-------------gttctaattttaatttatttaactgcatgcagGCTGCTAACTGGCTCGATTCTGGCTCATGAGATGATGCATGCTTACCTCCGACTTAAAG
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gtatattgaattattttcatgttttatcgatctaactaatgagtactattatactgcatttactattatttttcgtttttccccttgttattggcgttgattatgcaactggcctaccaacttaggagaagttatttgtcctgaatgcatagattttcatttccattattttgattacatgcagACTGTTAACTGGCTCCATTCTGGCTCATGAGATGATGCATGCTTACCTCCGACTTAAGG
upper sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT1G19270.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgattttctctctcattatttaacaaactaattacaattgatgtagtttccctttgatgaacgttgattctactgccaatccatgagaatgcattcatgttctaattttaatttatttaactgcatgcagGCTGCTAACTGGCTCGATTCTGGCTCATGAGATGATGCATGCTTACCTCCGACTTAAAG
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--------------------------------gtaaaaaagactctttttgcttccattgaa--ttgatctta-tgtcacagttcaag----cattgatggt----------tttgctgaattttgttcagGTTACTTACTGGTTCGATTCTAGCTCATGAGATGATGCATGCGTGGATGAGGCTCAAAG
upper sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 10
gtgattttctctctcattatttaacaaactaattacaattgatgtagtttccctttgatgaacgttgattctactgccaatccatgagaatgcattcatgttctaattttaatttat-ttaactgcatgcagGCTGCTAACTGGCTCGATTCTGGCTCATGAGATGATGCATGCTTACCTCCGACTTAAAG
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----------------tttttgttaaaaatggtggcagaagata-agtatgccctc---acatttgagttttgtttct------------tggataaattttctaatgtaagtaaacactctttgtatacagGTTGCTAACTGGGTCGATCCTTGCTCACGAGATGATGCATGCCTGGCTCCGACTAAATG
upper sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 3'ss of exon 11
gtgattttctctctcattatttaacaaactaattacaattgatgtagtttccctttgatgaacgttgattctactgccaatccatgagaatgcattcatgttctaattttaatttatttaactgcatgcagGCTGCTAACTGGCTCGATTCTGGCTCATGAGATGATGCATGCTTACCTCCGACTTAAAG
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--------------------------------gtacatctcttata----ccctctatagcaaattg--tttact--tgctttagtagttttgatgcatgtggcaaaaacaaccttcct---tgaatacagGTTGCTGACTGGGTCGATCCTGGCTCACGAGATGATGCATGCATGGCTCCGACTGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccaatccatgagaatgcattcatgttctaattttaatttatttaactgcatgcagGCTGCTAACTGGCTCGATTCTGGCTCATGAGATGATGCATGCTTACCTCCGACTTAAAG
attcatgttctaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgattttctctctcattatttaacaaactaattacaattgatgtagtttccctttgatgaacgttgattctactgccaatccatgagaatgcattcatgttctaattttaatttatttaactgcatgcagGCTGCTAACTGGCTCGATTCTGGCTCATGAGATGATGCATGCTTACCTCCGACTTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG