Sequence
atgc intronic sequence ATGC exonic sequencegtttgtaggggacctttattctttttggctatatgtaacttggcatgattctagaggtcgtttcttattgatacaccaaaatgattaattttttctatcccaaattgcatgttgcagAGATATTAAACCCGATAACTTGCTACTTGATAAATATGGTCACTTAAGACTATCAGATTTTGGACTATGTAAGCCATTGGACTGCAGTACTCTTGAGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 3'ss of exon 4
gtttgtaggggacctttattctttttggctatatgtaacttggcatgattctagaggtcgtttcttattgatacaccaaaatgattaattttttctatcccaaattgcatgttgcagAGATATTAAACCCGATAACTTGCTACTTGATAAATATGGTCACTTAAGACTATCAGATTTTGGACTATGTAAGCCATTGGACTGCAGTACTCTTGAGGAG
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------------------------------gtgtgtatatttgtagcttcatatcagcttcttcttaccgctgt--tgagatgttctgatgaacttagcacatgat-----tttcagAGATATCAAGCCTGATAATCTTTTATTAGATAGACATGGTCACTTAAGACTGTCAGATTTTGGATTATGCAAACCACTAGATTATTCCAACTTCCCAGAC
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G34920.1 (Glycine max), 3'ss of exon 4
gtttgtaggggacctttattctttttggctatatgtaacttggcatgattctagaggtcgtttcttattgatacaccaaaatgattaattttttctatcccaaattgcatgttgcagAGATATTAAACCCGATAACTTGCTACTTGATAAATATGGTCACTTAAGACTATCAGATTTTGGACTATGTAAGCCATTGGACTGCAGTACTCTTGAGGAG
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--------------tttat-ctatttaataacattcgtatatgtttggaactaaaaaaatagtcaaatgtacattgtagagtg--taaaataatcttctcaatatgtcacattgcagGGATATTAAGCCTGACAACTTGTTACTTGATAGATATGGACACTTAAGACTGTCAGATTTTGGACTATGTAAACCATTAGATTGTAGTACACTTGAAGAA
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G32160.1 (Glycine max), 3'ss of exon 4
gtttgtaggggacctttattctttttggctatatgtaacttggcatgattctagaggtcgtttcttattgatacaccaaaatgattaattttttctatcccaaattgcatgttgcagAGATATTAAACCCGATAACTTGCTACTTGATAAATATGGTCACTTAAGACTATCAGATTTTGGACTATGTAAGCCATTGGACTGCAGTACTCTTGAGGAG
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--------------tttat-ctatttaataatatttgcatatgtttggaactataaa--aattgtcaattgtacaatgtagattataaagtaatcttctcaatatgtcacattgcagGGATATTAAGCCTGACAACTTGTTACTTGATAAATATGGACATTTGAGACTATCAGACTTTGGACTATGTAAACCATTAGACTGTAGTACACTTGAAGAA
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G18670.2 (Glycine max), 3'ss of exon 4
gtttgtaggggacctttattctttttggctatatgtaacttggcatgattctagaggtcgtttcttattgatacaccaaaatg-attaattttttctatcccaaattgcatgttgcagAGATATTAAACCCGATAACTTGCTACTTGATAAATATGGTCACTTAAGACTATCAGATTTTGGACTATGTAAGCCATTGGACTGCAGTACTCTTGAGGAG
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------------------ttgcatttatatgtatgtgtttatgtttgatgtttgaaactaaaacaaacttaatcagttatatataataagtttgtctattcaatattttgtgttacagGGATATCAAGCCAGACAACTTACTACTTGATAGATATGGACACTTGAAATTGTCAGATTTTGGACTTTGTAAACCATTAGATTGTAGTGCACTTGAAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttattgatacaccaaaatgattaattttttctatcccaaattgcatgttgcagAGATATTAAACCCGATAACTTGCTACTTGATAAATATGGTCACTTAAGACTATCAGATTTTGGACTATGTAAGCCATTGGACTGCAGTACTCTTGAGGAG
gattaat putative branch site (score: 3)
aaaatgattaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtaggggacctttattctttttggctatatgtaacttggcatgattctagaggtcgtttcttattgatacaccaaaatgattaattttttctatcccaaattgcatgttgcagAGATATTAAACCCGATAACTTGCTACTTGATAAATATGGTCACTTAAGACTATCAGATTTTGGACTATGTAAGCCATTGGACTGCAGTACTCTTGAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG