Sequence
atgc intronic sequence ATGC exonic sequence...cttttgtttttccggtaaccaaacggggttagggtttttttttttttgttttttttgtttttaatttcaagataaattgactctgttctgggttttgaagAGCGAGTGACAAGTGCCAGAAGGAGAAGAGGAAGACAATTAATGGTGATGATTTATTATGGGCAATGGCTACGTTAGGGTTTGAAGATTATATTGATCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03490.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM5G804893_T01 (Zea mays), 3'ss of exon 2
-----------------------------cttttgttt----ttccggtaacc--aaacggggttagggtttttttttttttgttttttttgtttttaatt-tcaagataaattgactctgttctgggttttgaagAGCGAGTGACAAGTGCCAGAAGGAGAAGAGGAAGACAATTAATGGTGATGATTTATTATGGGCAATGGCTACGTTAGGGTTTGAAGATTATATTGATCCT
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gtaagtgcctcagctgcggctgactcttacttttgcttggcttgttgggaatttggagtggcgttcagggctttagcttggctggggttttgtgttgacttgtccatgtccacgtttttttgtccgctctttgcagAGCGAGTGACAAGTGCCAGAGGGAGAAGCGGAAGACCATCAATGGCGACGATCTGCTGTGGGCCATGGCCACGCTGGGGTTTGAAGACTACATTGAACCC
upper sequence: Vv06s0004g03490.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G064426_T02 (Zea mays), 3'ss of exon 2
-------------------------------cttttgtttttccggta----accaaacggggttagggtttttttttttttgttttt-tttgtttttaatttcaagataaattgactctgt------------tctgggttttgaagAGCGAGTGACAAGTGCCAGAAGGAGAAGAGGAAGACAATTAATGGTGATGATTTATTATGGGCAATGGCTACGTTAGGGTTTGAAGATTATATTGATCCT
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gtaagtccctcggccgcggctgactctgactcttctgtttgcttggcatgttgggaattcagagtggcgtttcgcaaaccgcactttagcttaggtggggttttgtgttgacttgtctacgtccacgttccttgtctgctgtttgcagGGCGAGTGACAAGTGCCAGAGGGAGAAGCGGAAGACCATCAATGGCGACGACCTGCTGTGGGCCATGGCCACGCTGGGGTTTGAGGACTATATTGAACCC
upper sequence: Vv06s0004g03490.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ24973 (Selaginella moellendorffii), 3'ss of exon 1
cttttgtttttccggtaaccaaacggggttagggtttttttttttttgttttttttgtttttaatttcaagataaattgactctgttctgggttttgaagAGCGAGTGACAAGTGCCAGAAGGAGAAGAGGAAGACAATTAATGGTGATGATTTATTATGGGCAATGGCTACGTTAGGGTTTGAAGATTATATTGATCCT
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-------------------------------gtaagtattgctggaagttctttcgatcctttgt-----ggtgatactatcttcttcta--ctttgcagAGCCAGTGACAAGTGCCAAAGAGAGAAGAGGAAGACGATCAATGGCGATGACTTGCTATGGGCAATGAGCACGCTGGGCTTCGAGGAGTACTTGGAACCT
upper sequence: Vv06s0004g03490.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ15374 (Selaginella moellendorffii), 3'ss of exon 1
cttttgtttttccggtaaccaaacggggttagggtttttttttttttgttttttttgtttttaatttcaagataaattgactctgttctgggttttgaagAGCGAGTGACAAGTGCCAGAAGGAGAAGAGGAAGACAATTAATGGTGATGATTTATTATGGGCAATGGCTACGTTAGGGTTTGAAGATTATATTGATCCT
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-----------------------------------------gtaagtattgcttcgatcctttgtggtgatgttaact-atcttcttcta--ctttgtagAGCCAGTGACAAGTGCCAAAGAGAGAAGAGGAAGACGATCAATGGCGATGACTTGCTATGGGCAATGAGCACGCTGGGCTTCGAGGAGTACTTGGAACCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttttttttgtttttaatttcaagataaattgactctgttctgggttttgaagAGCGAGTGACAAGTGCCAGAAGGAGAAGAGGAAGACAATTAATGGTGATGATTTATTATGGGCAATGGCTACGTTAGGGTTTGAAGATTATATTGATCCT
aattgac putative branch site (score: 3)
ttttttgtttttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttttgtttttccggtaaccaaacggggttagggtttttttttttttgttttttttgtttttaatttcaagataaattgactctgttctgggttttgaagAGCGAGTGACAAGTGCCAGAAGGAGAAGAGGAAGACAATTAATGGTGATGATTTATTATGGGCAATGGCTACGTTAGGGTTTGAAGATTATATTGATCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - -taaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gactctg