Sequence
atgc intronic sequence ATGC exonic sequence...tgctttgagatgggtactggatccttgaattagaataaggaattttttatttttatttttgctttcctcagacctaccatttctccttctccctgtgtagATTCAAGCCGCCTTTCGTACGGATGAAATTCGGAGAACTGCTCCAACTCCACAAGATGAGATGAGGGCAGGAATGAGCTATTTCCACGAGACAATCTGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 5
----------------------------------tgctttgagatgggtactg-gatccttgaattagaataaggaattttttat---ttttatttttgctttcctcagacctaccatttctccttctccctgtgt--agATTCAAGCCGCCTTTCGTACGGATGAAATTCGGAGAACTGCTCCAACTCCACAAGATGAGATGAGGGCAGGAATGAGCTATTTCCACGAGACAATCTGGA
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gtgatttcctttttgtaggagcttggattatgagtggcacaagaccactatagtgattatttcaacaatcagcaagatttgtcatacatcaaaaatatatttatatgattctaattccttatattttttcttatgttcagATCCAAGCCGCCTTTAGAACAGATGAAATTCGGCGAGCACCTCCTACACCACAGGATGAAATGCGTGCTGGAATGAGTTATTTTCATGAGACAATATGGA
upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 3'ss of exon 3
-----------------------------------------------------------------------------------------------tgctttgagatgggtactggatccttgaattagaataaggaatttt-ttatttttatttttgctttcctcagacctaccatttctccttctccctgtgtagATTCAAGCCGCCTTTCGTACGGATGAAATTCGGAGAACTGCTCCAACTCCACAAGATGAGATGAGGGCAGGAATGAGCTATTTCCACGAGACAATCTGGA
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gtaagataatcaagttaatcactgactcatttatagtcttgattttttttttcaaattgtatgtgccttttcgattatttatagaaattataaattactttcagcatgatgctcaacat----gccagattttgtgctccaactaaatttattaatgcattaataaggtgaatcagaacatgttcttatttttcagATTCAAGCAGCCTTTAGAACTGATGAGATCCGAAGAACCCAGCCAACTCCTCAAGATGAAATGAGGGCTGGTATGAGTTACTTTCATGAGACAATCTGGA
upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G14940.1 (Arabidopsis thaliana), 3'ss of exon 4
tgctttgagatgggtactggatcct--tgaattagaataaggaattttttatttttatttttgctttcctcagacctaccattt---ctccttctccctgtgtagATTCAAGCCGCCTTTCGTACGGATGAAATTCGGAGAACTGCTCCAACTCCACAAGATGAGATGAGGGCAGGAATGAGCTATTTCCACGAGACAATCTGGA
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---------gtaagaactcaacctcactggattgtaacatgttgatttgatataatcctcggataatagatagattggcctttgaaactctccttttttgtttagATTCAAGCTGCATTCCGAACAGATGAGATTAGAAGAACACCTCCAACCCCACAAGATGAAATGAGAGCTGGAATGAGTTATTTCCACGAGACAATCTGGA
upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G53310.3 (Arabidopsis thaliana), 3'ss of exon 3
tgctttgagatgggtactggatccttgaattagaataaggaattttttatttttat--ttttgctttcctcagacctaccatttctccttctccctgtgtagATTCAAGCCGCCTTTCGTACGGATGAAATTCGGAGAACTGCTCCAACTCCACAAGATGAGATGAGGGCAGGAATGAGCTATTTCCACGAGACAATCTGGA
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------------------------gtaaaatcttattggattcttcatatttacatgattttggaaactaatggaaaaaaaacttgggtttt---tgt-tagATTCAAGCTGCATTCCGAACAGATGAAATCAAAAGAACACCACCTACTCCTCAAGATGAGATGAGAGCGGGAATGAGTTATTTCCATGAAACTATCTGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatttttatttttgctttcctcagacctaccatttctccttctccctgtgtagATTCAAGCCGCCTTTCGTACGGATGAAATTCGGAGAACTGCTCCAACTCCACAAGATGAGATGAGGGCAGGAATGAGCTATTTCCACGAGACAATCTGGA
cctaccatttctcctt CT-rich tract
ttttatttttgcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctttgagatgggtactggatccttgaattagaataaggaattttttatttttatttttgctttcctcagacctaccatttctccttctccctgtgtagATTCAAGCCGCCTTTCGTACGGATGAAATTCGGAGAACTGCTCCAACTCCACAAGATGAGATGAGGGCAGGAATGAGCTATTTCCACGAGACAATCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
tgctttg
- - - - - - - - -tggatcc
- - - - - - - - - - - - - - - -agaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccttc