Sequence
atgc intronic sequence ATGC exonic sequencegtaaaccccccttttctccttatcttccttattcaaacttcagtttctctggttcataccatactcttgatcatccttgtgtataccttcatcaagaccattctagagtgaaatttcctttctgatttctgttaagcaggtgaatcttcatttatcacaaagcttttcttattttttgattcattcagATATTCACAAATTTCCTTTCAAGCGTAATGATCCATGCAACACGACCATTTGTTGTGAACGAATGGATTCAAACAAAGATTGAAGGTTATGAAGTTTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G10060.2 (Glycine max), 3'ss of exon 9
gtaaaccccccttttctccttatcttccttattcaaacttcagtttctctggttcataccatactcttgatcatccttgtgtataccttcatcaagaccattc--tagagtgaaatttcctttctgatttctgttaagcaggtgaatcttcatttatcacaaagcttt---tcttattttttgattcattcagATATTCACAAATTTCCTTTCAAGCGTAATGATCCATGCAACACGACCATTTGTTGTGAACGAATGGATTCAAACAAAGATTGAAGGTTATGAAGTTTCTG
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--------------------------------------------------------------------------------------------catattcaatcagtaatttggaattttgtatataaaaaataattatttaat-actcttgtttggtgttgcgattctaagttcaagtttgtgattaattcagATATTTACAAACTTTCTTTCGAGCATAATGATCCATGCAACTCGGCCATTTATTGTGAACGAGTGGATTCAAACGAAGATTGAAGGATATGAGGTTTCTG
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G10060.1 (Glycine max), 3'ss of exon 9
gtaaaccccccttttctccttatcttccttattcaaacttcagtttctctggttcataccatactcttgatcatccttgtgtataccttcatcaagaccattctagagtgaaatttcctttctgatttctgttaagcaggtgaatcttcatt--tatcacaaagcttttcttattttt-tgattcattcagATATTCACAAATTTCCTTTCAAGCGTAATGATCCATGCAACACGACCATTTGTTGTGAACGAATGGATTCAAACAAAGATTGAAGGTTATGAAGTTTCTG
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-----------------------------------------------------------------------------------cattttcaatcag-------taatttgtaattttgtatatacaaaataattatttaat-actcttgtttggtgttgcgattctgagttcacgtttgtgattaattcagATATTTACAAACTTTCTTTCGAGCATAATGATCCATGCAACTCGGCCATTTATAGTAAACGAGTGGATTCAAACGAAGATTGAAGGATATGAGGTTTCTG
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G10050.1 (Glycine max), 3'ss of exon 9
gtaaaccccccttttctccttatcttccttattcaaac--ttcagtttctctggttcataccatactcttgatcatccttgtgtataccttcatcaagaccattctagagtgaaatttcct-------ttctgatttctgttaagcaggtgaatcttcatttatcacaaagcttttcttattttt-tgattcattcagATATTCACAAATTTCCTTTCAAGCGTAATGATCCATGCAACACGACCATTTGTTGTGAACGAATGGATTCAAACAAAGATTGAAGGTTATGAAGTTTCTG
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gtacagtataggttctttgatactctgtctatgagaatgattaagtcatctttgtcattagagtttttatggattgtcctgtatattcgatttctcaaattttgttagagtaactcttcaaggcatagccatagccattatcaatcaggtaggctcttgtttgctgtcatcctcacttcatttttgtgatgtattcagATATTTACAAACTTCCTTTCGAGTATAATGATTCATGCAACTCGGCCATTTGTTGTGAATGAGCGGATTCAAACAAAGATTAAAGGATATGAGGTTACTG
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G10050.1 (Glycine max), 3'ss of exon 7
gtaaaccccccttttctccttatcttccttattcaaacttcagtttctctggttcataccatactcttgatcatccttgtgtataccttcatcaagaccattctagagtgaaatttcctttctgatttctgttaagcaggtgaatcttcatttatcacaaagcttttcttattttt-tgattcattcagATATTCACAAATTTCCTTTCAAGCGTAATGATCCATGCAACACGACCATTTGTTGTGAACGAATGGATTCAAACAAAGATTGAAGGTTATGAAGTTTCTG
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-----------------------------------------------------------------------------------------taagagtaactcttcaaggcatagccatagcgatagccattatcaatcaggtagactcttgtttgctgtcattctcacttcatttttgtgatgtattcagATATTTACAAACTTCCTTTCGAGTATAATGATTCATGCAACTCGACCATTTGTTGTGAATGAGCGGATTCAAACAAAAATTAAAGGATATGAGGTTACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagcaggtgaatcttcatttatcacaaagcttttcttattttttgattcattcagATATTCACAAATTTCCTTTCAAGCGTAATGATCCATGCAACACGACCATTTGTTGTGAACGAATGGATTCAAACAAAGATTGAAGGTTATGAAGTTTCTG
ttttgat putative branch site (score: 4)
ttcattc CT-rich tract
ttttcttattttttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaccccccttttctccttatcttccttattcaaacttcagtttctctggttcataccatactcttgatcatccttgtgtataccttcatcaagaccattctagagtgaaatttcctttctgatttctgttaagcaggtgaatcttcatttatcacaaagcttttcttattttttgattcattcagATATTCACAAATTTCCTTTCAAGCGTAATGATCCATGCAACACGACCATTTGTTGTGAACGAATGGATTCAAACAAAGATTGAAGGTTATGAAGTTTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG