Sequence
atgc intronic sequence ATGC exonic sequence...ttgttttgtgtttttttttttttcactttttgttttcttttggaatgcttcaaaatctattgctttctctttatgatgccatatgctcataaacatgcagGATGGAGAGGCTTATGCTTACCTGCTTAATGTTCTTGCACCAGAACACTGCAGTCCAGCAACCTTGGACGCAAAGGATCCCACTCATAGGGCAAAGCTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G46580.1 (Glycine max), 3'ss of exon 7
ttgttttgtgtttttttttttttcactttttgttttct--tttggaat-gcttcaaaat-ctattgctttctctttatgatgccat-atgctcataaacatgcagGATGGAGAGGCTTATGCTTACCTGCTTAATGTTCTTGCACCAGAACACTGCAGTCCAGCAACCTTGGACGCAAAGGATCCCACTCATAGGGCAAAGCTGG
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-----tagtgtcataactcatgagaatattgcctctacaatttgaaattgaatcaagctattatcaatccattatcctaatgtgttcacacccatttatttacagGATGGAGAGGCCTATGCTTATCTGCTTAATGTCCTTGCTCCTGAACATTGCAGTCCGGCCACCTTGGATACCAAGGACGCCAATGAAAGGGCAAATCTGG
upper sequence: Vv19s0090g01440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G02090.1 (Glycine max), 3'ss of exon 8
ttgttttgtgtttttttttttttcactttttgttttct--tttggaat-gcttcaaaat-ctattgctttctctttatgatgccat-atgctcataaacatgcagGATGGAGAGGCTTATGCTTACCTGCTTAATGTTCTTGCACCAGAACACTGCAGTCCAGCAACCTTGGACGCAAAGGATCCCACTCATAGGGCAAAGCTGG
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-----tagtgtcataactcatgagagttttgcctctacaatttgaaattgaatcaagctattaacaaaccattatcctaatgtgttcacacccatttatttacagGATGGAGAGGCCTATGCTTATCTGCTTAATGTCCTTGCTCCTGAACATTGCAGTCCGGCCACCTTGGATACCAAGGATGCCAGTGAAAGGGCAAATCTGG
upper sequence: Vv19s0090g01440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G41810.1 (Glycine max), 3'ss of exon 3
----------ttgttttg-tgtttttttttttttcactttttgtttt-cttttggaatgc----ttcaa--aatctattgctttctctttatgatg----ccatatgctcataaacatgcagGATGGAGAGGCTTATGCTTACCTGCTTAATGTTCTTGCACCAGAACACTGCAGTCCAGCAACCTTGGACGCAAAGGATCCCACTCATAGGGCAAAGCTGG
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gttaatgttaatgttccggtgccaaatggaaccaaatcaagagttttgcctctaaaatttgaaattcaatcaagctattatcaaaccattatcctaattttttcacacccatttatttacaagATGGAGAGGCCTATGCTTATCTGCTTAATGTCCTTGCTCCTGAACATTGCAGTCCGGTCACCTTGGATACCAAGGATGGCAATGAAAGGGCAAATCTG-
upper sequence: Vv19s0090g01440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G55400.1 (Arabidopsis thaliana), 3'ss of exon 7
----------------------------------------------------------------------ttgttttgtgtttttttttttttca---ctttttgttttcttttggaatgcttcaaaatctattgctttctctttat---gatgccatatgctcataaacatgcagGATGGAGAGGCTTATGCTTACCTGCTTAATGTTCTTGCACCAGAACACTGCAGTCCAGCAACCTTGGACGCAAAGGATCCCACTCATAGGGCAAAGCTGG
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gtatttccaaatagcaaatcttcttttttgtcccttcaaaagcttcatcaagtagttttctccaacacgctgacgcaatatcagtttgaatagaaaaaacaacagatcactcattagttatgaaaatgtttggtattttttcttaatgttgatggttgagattgttgactatgcagGACGCACAGGCCTATGCTTACCTGCTTAATGTTCTCGCACCAGAGCATTGTGATCCAGCAACTCTAAATGCAGAGGATGATCTTGAAAGGGCTAACATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcttcaaaatctattgctttctctttatgatgccatatgctcataaacatgcagGATGGAGAGGCTTATGCTTACCTGCTTAATGTTCTTGCACCAGAACACTGCAGTCCAGCAACCTTGGACGCAAAGGATCCCACTCATAGGGCAAAGCTGG
aaaatctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgttttgtgtttttttttttttcactttttgttttcttttggaatgcttcaaaatctattgctttctctttatgatgccatatgctcataaacatgcagGATGGAGAGGCTTATGCTTACCTGCTTAATGTTCTTGCACCAGAACACTGCAGTCCAGCAACCTTGGACGCAAAGGATCCCACTCATAGGGCAAAGCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - gaatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatatg