Sequence
atgc intronic sequence ATGC exonic sequencegtaagcctaataaacttctgcttccatgaaacaaaaccctcaagctcatgcattactaatccaatatttttgtccacaattagATGGTCCGCAATTGCATCGCACCTCCCTGGCCGGACGGACAACGAAATTAAGAATTTCTGGAATACCCATCTAAAGAAGAAGCTCATTCAGATGGGGTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g05670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G159547_T01 (Zea mays), 3'ss of exon 2
gtaagcctaataaacttctgcttccatgaaacaaaaccctca---------agctcatgcattactaatccaatat----ttttgtc----cacaattagATGGTCCGCAATTGCATCGCACCTCCCTGGCCGGACGGACAACGAAATTAAGAATTTCTGGAATACCCATCTAAAGAAGAAGCTCATTCAGATGGGGTTT
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gctagtttgtttcactctaacttcaataactcgtatttttgacttgtacgtagtgcatgctatgctaatccagtgtcaactgttgtcatggtcaaaccagATGGTCAGCTATCGCAAAGCACCTCCCTGGGCGGACTGATAACGAGATCAAGAATTTCTGGAACACGCACCTGAAGAAGAAGCTCATCCAGATGGGCTTC
upper sequence: Vv18s0001g05670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G13770.1 (Glycine max), 3'ss of exon 2
---------------------gtaagcctaataaacttctgcttccatgaaacaaaaccctcaagctcatgcattactaatccaatatttttgtccacaattagATGGTCCGCAATTGCATCGCACCTCCCTGGCCGGACGGACAACGAAATTAAGAATTTCTGGAATACCCATCTAAAGAAGAAGCTCATTCAGATGGGGTTT
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aaaaaatattaatgttgcagtccaaatcaaattggttgattattttttaaaaccttgttctgaagcttatgtact-ttagtt---ttttttctcctttgagtagATGGTCCGCAATAGCAAGTCACCTACCGGGTCGGACAGATAATGAAATCAAGAATTTTTGGAACACCCATCTCAAGAAGAAGCTTATTCAAATGGGTTAT
upper sequence: Vv18s0001g05670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G09280.1 (Glycine max), 3'ss of exon 2
gtaagcctaataaact---tctgcttccatga---aacaaaaccctcaagctcatgcattactaa----------tccaatatttttgtcca--caattagATGGTCCGCAATTGCATCGCACCTCCCTGGCCGGACGGACAACGAAATTAAGAATTTCTGGAATACCCATCTAAAGAAGAAGCTCATTCAGATGGGGTTT
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gta-gtctaatagaatagctagggatcgatgagaaaataaattatattaatttgattattctgaagcttatgttcttcaatttttttctccttttgactagATGGTCTGCAATAGCAAGTCACTTACCGGGTCGGACAGATAATGAAATCAAGAATTTTTGGAACACCCATCTCAAGAAGAAGCTGATTCAAATGGGATAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaacaaaaccctcaagctcatgcattactaatccaatatttttgtccacaattagATGGTCCGCAATTGCATCGCACCTCCCTGGCCGGACGGACAACGAAATTAAGAATTTCTGGAATACCCATCTAAAGAAGAAGCTCATTCAGATGGGGTTT
tactaat putative branch site (score: 1)
tttttgtcc putative PPT
taatccaatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcctaataaacttctgcttccatgaaacaaaaccctcaagctcatgcattactaatccaatatttttgtccacaattagATGGTCCGCAATTGCATCGCACCTCCCTGGCCGGACGGACAACGAAATTAAGAATTTCTGGAATACCCATCTAAAGAAGAAGCTCATTCAGATGGGGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG