Sequence
atgc intronic sequence ATGC exonic sequencegtatgctttaatgtctattctggaatccttgagcaagaacagtgtccctgcatcccatgcttagaggggtgtgcatgtttacacattgggtgttggttttaccagtcacttacttggtctcatgaaatgatcttttagGTGATGATTTCTATGAGCTGCGTTCATCACGCATAAAAACTCGGAATACCCATGGTACTGGCTGCACTTTGGCATCTTGTATAGCAGCTGAGCTAGCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g00320.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G29140.1 (Glycine max), 3'ss of exon 5
--------------gtatgctttaatgtctattctggaatccttgagcaagaacagtgtccctgcatcccatg---cttagaggggt--gtgcatgtttacacattgggtgttgg---ttttaccagtcacttacttggtctcatgaaat--gatcttttagGTGATGATTTCTATGAGCTGCGTTCATCACGCATAAAAACTCGGAATACCCATGGTACTGGCTGCACTTTGGCATCTTGTATAGCAGCTGAGCTAGCAAA
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gtgagattcaagtctttaattctgagacacaatgccccccccccaaaaaaaaaaaaattcaacaaaatctatgagacataacctctttcctttactttttgctaatgaatgtccaaatctttgttaaaaatgaactccatttctaggtcttgagttttgcagGTGAGGATTTCTATGAGCTGTGTTCTCCGCGTGTAAATACTCGCAATAGTCATGGTACTGGTTGTACCTTGGCATCCTGCATAGCAGCAGAGCTGGCAAA
upper sequence: Vv12s0035g00320.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G20080.1 (Glycine max), 3'ss of exon 6
gtatgctttaatgtctattctggaatccttgagcaagaacagtgtccctgcatcccatgcttagaggggtgtgcatgtttacacattgggtgttggttttaccagtcacttacttggtctcatgaaatgatcttttagGTGATGATTTCTATGAGCTGCGTTCATCACGCATAAAAACTCGGAATACCCATGGTACTGGCTGCACTTTGGCATCTTGTATAGCAGCTGAGCTAGCAAA
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---------------------------ggtaagcaaaatctg-gtcccgacccgtcccgttgccatgcctatgtatgtccaaatctt---tgttaaaaatga-actcaatttctaggtcttgag------ttttgcagGTGAGGAGTTCTACGAGCTGTGTTCACCGCGTGTAAATACTCGCAATAGTCATGGTACTGGTTGTACCTTGGCATCATGCATAGCAGCAGAGCTGGCAAA
upper sequence: Vv12s0035g00320.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G22940.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgctttaatgtctattctggaatccttgagcaagaacagtgtccctgcatcccatgcttagaggggtgtgcatgttta-cacattgggtgttggttttaccagtcacttacttggtctcatgaaatgatcttttagGTGATGATTTCTATGAGCTGCGTTCATCACGCATAAAAACTCGGAATACCCATGGTACTGGCTGCACTTTGGCATCTTGTATAGCAGCTGAGCTAGCAAA
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-----gtatgatgatagcacagtgatctttttattctaattttgtctttgt------tgttgaggaggcttaacggactcaatacatttg----tggttataaaaatttggaacttg-----------------tttagGCAAGGAGTTTCATGAACTCCGTTCTCCTCGCATAGCTACAAGAAATACTCATGGGACTGGTTGCACTTTGGCTTCCTGTATTGCAGCTGAGCTTGCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattgggtgttggttttaccagtcacttacttggtctcatgaaatgatcttttagGTGATGATTTCTATGAGCTGCGTTCATCACGCATAAAAACTCGGAATACCCATGGTACTGGCTGCACTTTGGCATCTTGTATAGCAGCTGAGCTAGCAAA
cacttac putative branch site (score: 2)
tctttt putative PPT
atctttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctttaatgtctattctggaatccttgagcaagaacagtgtccctgcatcccatgcttagaggggtgtgcatgtttacacattgggtgttggttttaccagtcacttacttggtctcatgaaatgatcttttagGTGATGATTTCTATGAGCTGCGTTCATCACGCATAAAAACTCGGAATACCCATGGTACTGGCTGCACTTTGGCATCTTGTATAGCAGCTGAGCTAGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA