Sequence
atgc intronic sequence ATGC exonic sequencegtgccactaattcccttctcttcttttctatacacactcatagctatatgttttttttttcctttaaacttaatatttaagctggctaatttatttatttatttattttcttttttgttattttcagAATGATCATGATCCATCTAAGTTAGTCGCAGAGACACCATGCAAGCTGCTACGGTACTTAATCTCGGATAATAGTCATGTTGATGCTGACACACCGTATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 17
gtgccactaattcccttctcttcttttctatacacactcatagctatatgttttttttttcctttaaacttaatatttaagctggctaatttatttatttatttattttcttttttgttattttcagAATGATCATGATCCATCTAAGTTAGTCGCAGAGACACCATGCAAGCTGCTACGGTACTTAATCTCGGATAATAGTCATGTTGATGCTGACACACCGTATG
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------------------------------------------gtgaaatgagttcagttttaccttaactatttcttttg--tggctgaggtaagtttctaaac-ctctctttttttttttatgcagAATGATCATGATCCATCAAAGTTGGTTGCGGAGACACCATGCAAGCTTCTGAGATATTTGGTTGCAGATGACAGTCATGTTGATGCTGACACACCATATG
upper sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA04G11550.1 (Glycine max), 3'ss of exon 17
gtgccactaattcccttctcttcttttctatacacactcatagctatatgttttttttttcctttaaacttaatatttaagctggctaatttatttatttatttattttcttttttgttattttcagAATGATCATGATCCATCTAAGTTAGTCGCAGAGACACCATGCAAGCTGCTACGGTACTTAATCTCGGATAATAGTCATGTTGATGCTGACACACCGTATG
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------------------------------------------gtgaaatgagttcatttttaccttaactatttcttttg--tggctgaggtaagtttcta---aacctcttttttcta---tgcagAATGATCATGATCCGTCGAAGTTGGTTGCCGAGACACCATGCAAGCTTCTGAGATATTTGGTTGCAGATGACAGTCATGTTGATGCTGACACACCGTATG
upper sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT1G36180.1 (Arabidopsis thaliana), 3'ss of exon 17
gtgccactaattcccttctcttcttttctatacacactcatagctatatgttttttttttcctttaaacttaatatttaagctggctaatttatt-tatttatttattt-tcttttttgttattttcagAATGATCATGATCCATCTAAGTTAGTCGCAGAGACACCATGCAAGCTGCTACGGTACTTAATCTCGGATAATAGTCATGTTGATGCTGACACACCGTATG
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-----------------------------gtttcaactgaacggttt---ttctattttaccgtaatacttcacgtttctctgaagtcatttttagcaataagttatctgtcaattttggcttgttcagAATGATCATGATCCTTCGAAGTTGATGGCTGAGACACCATGCAAGTTGCTAAGGTACCTGGTTTCAGACAACAGCAGTATTGATACTGATACGCCGTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatttaagctggctaatttatttatttatttattttcttttttgttattttcagAATGATCATGATCCATCTAAGTTAGTCGCAGAGACACCATGCAAGCTGCTACGGTACTTAATCTCGGATAATAGTCATGTTGATGCTGACACACCGTATG
ggctaat putative branch site (score: 3)
tttatttattttcttt putative PPT
taatttatttatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgccactaattcccttctcttcttttctatacacactcatagctatatgttttttttttcctttaaacttaatatttaagctggctaatttatttatttatttattttcttttttgttattttcagAATGATCATGATCCATCTAAGTTAGTCGCAGAGACACCATGCAAGCTGCTACGGTACTTAATCTCGGATAATAGTCATGTTGATGCTGACACACCGTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG