Sequence
atgc intronic sequence ATGC exonic sequence...agggagagcagttcctttttttttttttttctctccaaacaaagttatgcttctaccttgagttttattgtttgcttgttagtattaatattatcctcagGTTGATGCAGAATCAAGCAAAGAGTTGGAACAATGGAATGAAATGCTAAGAAATGATGCAGTTAAATTATGCCAAGAGAACAATTTCAATTCAGGTTTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G01160.1 (Glycine max), 3'ss of exon 8
agggagagcagttcctttttttttttttttctctccaaacaaagttatgcttctac-cttgagttttattgtttgcttgttagtatta-atattatcct---cagGTTGATGCAGAATCAAGCAAAGAGTTGGAACAATGGAATGAAATGCTAAGAAATGATGCAGTTAAATTATGCCAAGAGAACAATTTCAATTCAGGTTTCT
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-----gagcagtataatttgctgtttctttaccatataaaacagtatttttaccatgtttgttccttatttttccaccttttttataatgtatcatgttttacagGTTGATGCTGAATCCAATAAAGAATTGGAACAGTGGAATGAAATGCTTAAAAGTGATGCCATCAAACTATGCCAGGAGAACAATTTCAACCCAGGATTTT
upper sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G38500.1 (Glycine max), 3'ss of exon 5
agggagagcagttcctttttttttttttttctctccaaacaaagttatgcttctac-cttgagttttattgttt-gcttgttagtat----taatattatcctcagGTTGATGCAGAATCAAGCAAAGAGTTGGAACAATGGAATGAAATGCTAAGAAATGATGCAGTTAAATTATGCCAAGAGAACAATTTCAATTCAGGTTTCT
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------caatgtaattttctgtttcttcaccatataaaacagtatttttttaccatgtttgttccttatttttccacttttttttatactgtatcatgttttacagGTTGATGCTGAATCCAGTAAAGAATTGGAACAGTGGAATGAAATGCTTAAAAGCGATGCCATCAAACTATGCCAGGAGAACAATTTCAACCCAGGATTTT
upper sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G37730.1 (Glycine max), 3'ss of exon 7
agggagagcagttcctttttttttttttttctctccaaacaaagttatgcttctaccttgagtt---ttattgtttgcttgttagta--ttaatattatcctcagGTTGATGCAGAATCAAGCAAAGAGTTGGAACAATGGAATGAAATGCTAAGAAATGATGCAGTTAAATTATGCCAAGAGAACAATTTCAATTCAGGTTTCT
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---gatagaagtgttgtaactaccctgtctttg-ccaagtaaaactgcattt-taccacacattccctttttatctcctgtcctatactttatcatgattttcagGTTGACTCAGAATCCAATAAAGAATTGGAACAGTGGAATGAAATGCTTAAAAATGATGCTGTCAAGTTATGTTTGGAGCACAATTTTAACACAGGATTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgcttctaccttgagttttattgtttgcttgttagtattaatattatcctcagGTTGATGCAGAATCAAGCAAAGAGTTGGAACAATGGAATGAAATGCTAAGAAATGATGCAGTTAAATTATGCCAAGAGAACAATTTCAATTCAGGTTTCT
tattaat putative branch site (score: 2)
ttatcctc CT-rich tract
ttgttagtattaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agggagagcagttcctttttttttttttttctctccaaacaaagttatgcttctaccttgagttttattgtttgcttgttagtattaatattatcctcagGTTGATGCAGAATCAAGCAAAGAGTTGGAACAATGGAATGAAATGCTAAGAAATGATGCAGTTAAATTATGCCAAGAGAACAATTTCAATTCAGGTTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - ctctcca
- - - - - - - - - - - - - - - - - - -aacaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttgt