Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgcagctgttccatgcaaaaccagttttctcttctttttatattttgcttctcttcctttaatattttgcttctcttccatagacaagttaaaatttgattaatggtctttacttcataaaatatgcagGTGAGTCTGGTTCAAATCCCCAGTAAAGAGGAGTTGAGGCAGAAGAATCTCTTTAGTGTTAGTGACTGCAAAATGTACTGGCAAAGCAATGGGGACTACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g07070.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G27640.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgagtgcagctgttccatgcaaaaccagttttctcttctttttatattttgcttctcttcctttaatattttgcttctcttccatagacaagttaaaatttgattaatggtctttacttcataaaatatgcagGTGAGTCTGGTTCAAATCCCCAGTAAAGAGGAGTTGAGGCAGAAGAATCTCTTTAGTGTTAGTGACTGCAAAATGTACTGGCAAAGCAATGGGGACTACC
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-----------------gtatgtttcta-ttatttctgatgtacatgaaaagctctgaatccttaatttgcttctgtttctctgcctggtgttttgaaattacat--gttgatatcccttctt--------cagGTTGCCCTAGTCCAAATCCCGAGCAAGGTGGAGCTGAGGCAGAAGAATCTCTTCAGTGTGAGCGACTGCAAGATGTACTGGCAGAGTAGTGGAGAGTATC
upper sequence: Vv04s0008g07070.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G25780.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagtgcagctgttccatgcaaaaccagttt-tctcttctttttatattttgcttctcttcctt--taatattttgcttctcttccatagacaagttaaaatttgattaatggtctttacttcataaaatatgcagGTGAGTCTGGTTCAAATCCCCAGTAAAGAGGAGTTGAGGCAGAAGAATCTCTTTAGTGTTAGTGACTGCAAAATGTACTGGCAAAGCAATGGGGACTACC
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-------------------gtatgtttcttttatttcttatgtaaatgaaaagccctgatacctcaataatcttccgtttctctgcca-------gttgttttgtatttacatgttgatatcccat----tcttcagGTTGCTCTAGTCCAAATCCCGAGTAAGGTAGAGCTGAGGCAGAAGAATCTCTTCAGTGTGAGCGACTGCAAGATGTACTGGCAGAGTAGTGGAGAGTATC
upper sequence: Vv04s0008g07070.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S138_36V6.1 (Physcomitrella patens), 3'ss of exon 6
-----------gtgagtgcagctgttccatgcaaaaccagttttctcttctttttatattttgcttctcttcctttaa----tattttgcttctcttccatagacaagttaaaatttgattaat---ggtctttac---ttcataaaatatgcagGTGAGTCTGGTTCAAATCCCCAGTAAAGAGGAGTTGAGGCAGAAGAATCTCTTTAGTGTTAGTGACTGCAAAATGTACTGGCAAAGCAATGGGGACTACC
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gtgggtttcgaactggctctttgattatgtatgtaatctacggtgtggcattcctgaagtttgttgaggtgcgacaaaattttatttggccatcttcatgtatgcaactctgaaaataataagtcggagtgcttacggcttgctgcatccttcagGTTAGCTTGGTGTCCATTCCTAGCAGAGAGGAATTGCGACAGAAGAACCTCTTCAGCGTCAGTGACTGCAAGATGTATTGGCAAAGCAATGGCGAGTACT
upper sequence: Vv04s0008g07070.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S130_248V6.2 (Physcomitrella patens), 3'ss of exon 6
gtgagt----gcagctgttccatgcaaaaccagttttctcttctttttatattttgcttctcttc------ctttaatattttgcttctcttccatagacaagttaaaatttgat-taatggtctttacttcataaaatatg-cagGTGAGTCTGGTTCAAATCCCCAGTAAAGAGGAGTTGAGGCAGAAGAATCTCTTTAGTGTTAGTGACTGCAAAATGTACTGGCAAAGCAATGGGGACTACC
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gtgagtttttaccccctttctatttgatatt--ttgtttcatacttgggtaatccggaacttttttgaggacgatagcatattgtttgacctcctgcatgaaggcaatactgaaaataatggacaatgatttgtggtatctttcagGTGAGTCTTGTGTCTATTCCCAGCAGAGAAGAGTTGCGTCAAAAGAACCTTTTCAGCGTGAGTGACTGCAAAATGTATTGGCAAAGCAACGGTGAGTACT
upper sequence: Vv04s0008g07070.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ13839 (Selaginella moellendorffii), 3'ss of exon 8
gtgagtgcagctgttccatgcaaaaccagttttctcttctttttatattttgcttctcttcctttaatattttgcttctcttccatagacaagttaaaatttgattaatggtctttacttcataaaatatgcagGTGAGTCTGGTTCAAATCCCCAGTAAAGAGGAGTTGAGGCAGAAGAATCTCTTTAGTGTTAGTGACTGCAAAATGTACTGGCAAAGCAATGGGGACTACC
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---------------------------------------------------------------gtatgtatttgtgtttgatttctctacatgt---gacctggtt--tgctcttgacttca--------acagGTTAGCCTGGTTCAAATTCCTGGCAGGGAAGAACTGAGGCAGAAGAACCTTTTCAGTGTCAGTGACTGCAAGATGTACTGGCAAAGCAACGGAGACTATC
upper sequence: Vv04s0008g07070.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ12681 (Selaginella moellendorffii), 3'ss of exon 8
gtgagtgcagctgttccatgcaaaaccagttttctcttctttttatattttgcttctcttcctttaatattttgcttctcttccatagacaagttaaaatttgattaatggtctttacttcataaaatatgcagGTGAGTCTGGTTCAAATCCCCAGTAAAGAGGAGTTGAGGCAGAAGAATCTCTTTAGTGTTAGTGACTGCAAAATGTACTGGCAAAGCAATGGGGACTACC
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---------------------------------------------------------------gtatgtatttgtgtttgatttctctacatgt---gacctggtt--tgctctcaacttca--------acagGTCAGCCTGGTTCAAATTCCTGGCAGGGAAGAACTGAGGCAGAAGAACCTTTTCAGTGTCAGTGACTGCAAGATGTACTGGCAAAGCAACGGAGACTATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttccatagacaagttaaaatttgattaatggtctttacttcataaaatatgcagGTGAGTCTGGTTCAAATCCCCAGTAAAGAGGAGTTGAGGCAGAAGAATCTCTTTAGTGTTAGTGACTGCAAAATGTACTGGCAAAGCAATGGGGACTACC
gattaat putative branch site (score: 3)
acaagttaaaatttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgcagctgttccatgcaaaaccagttttctcttctttttatattttgcttctcttcctttaatattttgcttctcttccatagacaagttaaaatttgattaatggtctttacttcataaaatatgcagGTGAGTCTGGTTCAAATCCCCAGTAAAGAGGAGTTGAGGCAGAAGAATCTCTTTAGTGTTAGTGACTGCAAAATGTACTGGCAAAGCAATGGGGACTACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA