Sequence
atgc intronic sequence ATGC exonic sequence...tactacacttctttgcttgatgactgcaacttgcacatttttggtgcatcagtaacccataccccaaagtaatgaagtccaaatctgaaatttggtccagGGTACACCATTGGTAGCAGGACTTGCAGTTGCTGCTGCTGCTCTTGCTGGTAGATATGGAATTCAGGCTTGGCAAGCATTCAAGGCAAGACCACCTACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g02370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G20060.1 (Glycine max), 3'ss of exon 1
tactacacttctttgcttgatgactgcaacttgcacatttttg-gtgcatcagta--acccataccccaaagtaatgaagtccaaatctgaaatttggtccagGGTACACCATTGGTAGCAGGACTTGCAGTTGCTGCTGCTGCTCTTGCTGGTAGATATGGAATTCAGGCTTGGCAAGCATTCAAGGCAAGACCACCTACAT
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--aggggtctaggggataagggtttttttatcatttatttttaagtttgttgattttgatattgtctttggtttgtggaactgaaattggaaatt-ggaacagGCTACACCATTGGTGGCAGGGATTGCAGTGGCGGCTGCGGCTTATGCTGGTAGATATGGTATCCAGGCTTGGCAAGCATTCAAAGCTAGACCACCGAGTA
upper sequence: Vv08s0040g02370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G05710.1 (Glycine max), 3'ss of exon 1
tactacacttctttgcttgatgactgcaacttgcacatttttggtgcatcag---taacccataccccaaagtaatgaagtccaaatctgaaatttggtccagGGTACACCATTGGTAGCAGGACTTGCAGTTGCTGCTGCTGCTCTTGCTGGTAGATATGGAATTCAGGCTTGGCAAGCATTCAAGGCAAGACCACCTACAT
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-agggtaggggtctaggggataaggtttttttttat-ttttaagtttgttgattttgatattgcctttgggtttgtggaactgaaat-tggaagttggaacagGCTACACCATTGGTGGCAGGGATTGCAGTGGCGGCTGCGGCTTATGCTGGTAGATATGGTATCCAGGCTTGGCAAGCATTCAAGGCTAGGCCACCGAGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatcagtaacccataccccaaagtaatgaagtccaaatctgaaatttggtccagGGTACACCATTGGTAGCAGGACTTGCAGTTGCTGCTGCTGCTCTTGCTGGTAGATATGGAATTCAGGCTTGGCAAGCATTCAAGGCAAGACCACCTACAT
cagtaac putative branch site (score: 2)
aaagtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactacacttctttgcttgatgactgcaacttgcacatttttggtgcatcagtaacccataccccaaagtaatgaagtccaaatctgaaatttggtccagGGTACACCATTGGTAGCAGGACTTGCAGTTGCTGCTGCTGCTCTTGCTGGTAGATATGGAATTCAGGCTTGGCAAGCATTCAAGGCAAGACCACCTACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - -tgcttga
- - - - - - - - - - tgactgc
- - - - - - - - - - - - - - -cttgcac
- - - - - - - - - - - - - - - - - - - - - - tgcatca
- - - - - - - - - - - - - - - - - - - - - - - - - - taaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tacccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaaatc