Sequence
atgc intronic sequence ATGC exonic sequence...tgtttttatctttacttgtttgaggtgctttattaaatgtgctgccatgtgtggaaatcgcaaatttcacttcatattagtacactgatatctgatgcagTTAAAAGGCAAACACGGCAATGGGCTGCTTGGACACGTCAAGAGGAGGAAAGTTTCTTCACTGCATTGCGACAAGTTGGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g01460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G23840.1 (Glycine max), 3'ss of exon 2
-----------tgtttttatctttacttgtttgaggtgctttattaaatgtgctgccatgtgtggaaatcgcaaatttcacttcata---ttagtacactgatatctgatgcagTT---AAAAGGCAAACACGGCAATGGGCTGCTTGGACACGTCAAGAGGAGGAAAGTTTCTTCACTGCATTGCGACAAGTTGGCAAG
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gtcagttttcgagcttcattcctaatttttatttggtgtacagttaggctt--tgacacgtgccatcgttg-ggatgagaagtcaaaggtttaattgcttgatgtcgtatatagCTACAAAAAAACCGACCAGGCAGTGGGCTGCATGGACTCGACAAGAGGAGGAAAGTTTCTTCACCGCGTTACGACAAGTTGGGAAG
upper sequence: Vv08s0040g01460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G05420.1 (Glycine max), 3'ss of exon 2
tgtttttatctttacttgtttgaggtgctttattaaatgtgctgccatgtgtggaaatcgcaaatttcacttcatattagtacactgatatctgatgcagTTAAAAGGCAAACACGGCAATGGGCTGCTTGGACACGTCAAGAGGAGGAAAGTTTCTTCACTGCATTGCGACAAGTTGGCAAG
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--------------------------------------------------------gttaaaggtttaattgcttgatatcgtat--atagCTA------CAAAAAAACCGACCAGGCAGTGGGCTGCGTGGACTCGACAAGAGGAGGAAAGTTTCTTCACCGCGTTACGACAAGTTGGGAAG
upper sequence: Vv08s0040g01460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G36960.3 (Arabidopsis thaliana), 3'ss of exon 2
tgtttttatctttacttgtttgaggtgctttattaaatgtgctgccatg--tgtggaaatcgcaaatttcacttcatattagtacactgatatctgatgcagTTAAAAGGCAAACACGGCAATGGGCTGCTTGGACACGTCAAGAGGAGGAAAGTTTCTTCACTGCATTGCGACAAGTTGGCAAG
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-------------gtatgtt-gcattgatttaaaagttgtgcttgtatgcttgttttgttagcttagttgattttttttaatggaaatggcga-tgttgcagCTAAGAAGCCGACTAGGCAATGGGCTGCTTGGACACATCAAGAAGAGGAAAGTTTCTTCACTGCTCTTCGTCAAGTTGGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtgtggaaatcgcaaatttcacttcatattagtacactgatatctgatgcagTTAAAAGGCAAACACGGCAATGGGCTGCTTGGACACGTCAAGAGGAGGAAAGTTTCTTCACTGCATTGCGACAAGTTGGCAAG
ttcatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttttatctttacttgtttgaggtgctttattaaatgtgctgccatgtgtggaaatcgcaaatttcacttcatattagtacactgatatctgatgcagTTAAAAGGCAAACACGGCAATGGGCTGCTTGGACACGTCAAGAGGAGGAAAGTTTCTTCACTGCATTGCGACAAGTTGGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - gctgcca
- - - - - - - - - - - - - - - - - - - - - - - -tgtgtgg