Sequence
atgc intronic sequence ATGC exonic sequencegtgtgcttctaattgtttttttttttttttgtctcaactagatgctctagtgcagATGGCTACATTAGCAATCCGAAGTGGAATAGACTTCTCTTGAAAAGTGGAAAAGAGGCCAAGCGATCTAATGCAATCTTGCACAAGGTTATAACTGAAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0024g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G07120.1 (Glycine max), 3'ss of exon 7
-------------------------------------------gtgtgcttctaattgttt-ttttttttttttgtctcaactagatgctcta-gtgcagATGGCTACATTAGCAATCCGAAGTGG-AATAGACTTCTCTTGAAAAGTGGAAAAGAGGCCAAGCGATCTAATGCAATCTTGCACAAGGTTATAACTGAAGC
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gtatgaatgaaccttatgagcctaaagctgtttgattgattatctgtattatatgctgtttatcaacattttaagtggtagcttcttatcatctgaacagATAGCTTCGCTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGTGGCAAAGAAGCTAAGCGGTCAAATGCAATTTTGCACAAA--------------
upper sequence: Vv15s0024g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G41850.1 (Glycine max), 3'ss of exon 7
-----------------------------gtgtgctt--------ctaattgtttttttttttttttgtctcaactagatgctct--------agtgcagATGGCTACATTAGCAATCCGAAGTGG-AATAGACTTCTCTTGAAAAGTGGAAAAGAGGCCAAGCGATCTAATGCAATCTTGCACAAGGTTATAACTGAAGC
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ggattaatgttatggtatgaatgaactttatgagcttaaagcagtttgattggttatctgtatctacattttaagtggtagcttcttatcatctgaacagATAGCTTCACTGGCAATCCGAAGTGGGAATGGACTTCTCTTGAAAGGTGGCAAAGAAGCTAGGCGGTCAAATGCAATTTTGCACAAA--------------
upper sequence: Vv15s0024g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G03830.1 (Glycine max), 3'ss of exon 10
-------------------------------------gtgtgcttctaattgtttttttttttttttgtctcaactagatgctcta--------gtgcagATGGCTACATTAGCAATCCGAAGTGG-AATAGACTTCTCTTGAAAAGTGGAAAAGAGGCCAAGCGATCTAATGCAATCTTGCACAAGGTTATAACTGAAGC
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gtctaagttgcagttcagaaaactaaaagtctagattgaatatcttttaattttatgtttatctgcatcctaagccagtagcttcatgtaatctgaacagATAGCTTCTTTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGAGGCAAGGAGGCTAAGCGATCAAATGCAATTTTGCACAAA-------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtgcttctaattgtttttttttttttttgtctcaactagatgctctagtgcagATGGCTACATTAGCAATCCGAAGTGGAATAGACTTCTCTTGAAAAGTGGAAAAGAGGCCAAGCGATCTAATGCAATCTTGCACAAGGTTATAACTGAAGC
ttctaat putative branch site (score: 2)
ttctaattgttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgcttctaattgtttttttttttttttgtctcaactagatgctctagtgcagATGGCTACATTAGCAATCCGAAGTGGAATAGACTTCTCTTGAAAAGTGGAAAAGAGGCCAAGCGATCTAATGCAATCTTGCACAAGGTTATAACTGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC