Sequence
atgc intronic sequence ATGC exonic sequence...aatctagctattttttggtgtacgtgcaatacaattttgttatgatttttgcatgcattgtttgtaaactaacacgtacgctctttaattatctgaacagTGAAAAGGATCAGGCTGAAAATTTGATGATTGTTGATCTGCTGAGGAATAATCTGGGTCGTGTCTGCGAGGTGGGTTCTGTGCATGTACCCCTTCTCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04180.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os06g48620.1 (Oryza sativa), 3'ss of exon 12
aatctagctattttttggtgtacgtgcaatacaattt---tgttatgatttttgcatgcattgtttgtaaactaacacgtacgctctttaat-tatctgaacagTGAAAAGGATCAGGCTGAAAATTTGATGATTGTTGATCTGCTGAGGAATAATCTGGGTCGTGTCTGCGAGGTGGGTTCTGTGCATGTACCCCTTCTCATG
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---gcaagtatctgatag-atacttttttcactgttcaaacattatgattttggttttaccagtcctca---caatactgatattttcttatgtgtttcaacagTGAAAAAGATCAAGCTGAGAACTTGATGATTGTTGACCTCCTAAGAAACGATCTTGGTAAGGTTTGTGAACCTGGGAGTGTGCATGTTCCTCGCCTCATG
upper sequence: Vv13s0019g04180.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA20G31970.1 (Glycine max), 3'ss of exon 15
----------aatctagctattttttggtgtacgtgcaatacaattttgttatgattt---ttgcatgcattgtttgtaaactaacacgtacgctctttaattatctgaacagTGAAAAGGATCAGGCTGAAAATTTGATGATTGTTGATCTGCTGAGGAATAATCTGGGTCGTGTCTGCGAGGTGGGTTCTGTGCATGTACCCCTTCTCATG
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aaatattgaatacccaga-attgtaacgtgttagagcaaagcactctaact-tgctttcagtggggtgaatctgttgtgaactaacttgctttctcttt-----------cagCGAAAAGGATCAGGCTGAAAACTTGATGATTGTTGACCTTCTAAGGAATGACCTTGGCCGTGTCTGTGATCCTGGATCTGTTCATGTGCCACGTCTCATG
upper sequence: Vv13s0019g04180.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G35580.1 (Glycine max), 3'ss of exon 12
----------aatctagctattttttggtgtacgtgcaatacaattttgttatgattt--ttgcatgcattgtttgtaaactaacacgtacgctctttaattatctgaacagTGAAAAGGATCAGGCTGAAAATTTGATGATTGTTGATCTGCTGAGGAATAATCTGGGTCGTGTCTGCGAGGTGGGTTCTGTGCATGTACCCCTTCTCATG
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aagtattcaatatccaga-attgtaacatgttaaaacaaagcactctaacttgcttttagttgggtgaatctgttgtgaactaacttgctttctcttt-----------cagCGAAAAGGATCAGGCTGAAAACCTGATGATTGTTGACCTTCTAAGGAATGACCTTGGCCGTGTTTGTGATCCTGGATCTGTTCATGTGCCACGTCTCATG
upper sequence: Vv13s0019g04180.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT2G28880.1 (Arabidopsis thaliana), 3'ss of exon 13
aatctagctattttttggtgtacgtgcaatacaattttgttatgatttttgcatgcattgtttgtaaactaacacgtacgctctttaattatctgaacagTGAAAAGGATCAGGCTGAAAATTTGATGATTGTTGATCTGCTGAGGAATAATCTGGGTCGTGTCTGCGAGGTGGGTTCTGTGCATGTACCCCTTCTCATG
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-gtacaccaaacacgttgttctagaatcattgaatgtttcttaattgttcacatcaatgctactttaac--gttgtttttttccccatgtcttataacagTGAGAAGAATCAAGCCGAGAATCTGATGATTGTTGACCTTCTAAGGAATGATCTCGGTCGTGTCTGTGAGCCTGGCTCAGTCCATGTACCTAACCTCATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgcatgcattgtttgtaaactaacacgtacgctctttaattatctgaacagTGAAAAGGATCAGGCTGAAAATTTGATGATTGTTGATCTGCTGAGGAATAATCTGGGTCGTGTCTGCGAGGTGGGTTCTGTGCATGTACCCCTTCTCATG
tttaattatctgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatctagctattttttggtgtacgtgcaatacaattttgttatgatttttgcatgcattgtttgtaaactaacacgtacgctctttaattatctgaacagTGAAAAGGATCAGGCTGAAAATTTGATGATTGTTGATCTGCTGAGGAATAATCTGGGTCGTGTCTGCGAGGTGGGTTCTGTGCATGTACCCCTTCTCATG
- - - - - - - - - - tacgtgc
- - - - - - - - - - - - - -aatacaa
- - - - - - - - - - - - - - - - - - - - - - - - - gcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaactaa