Sequence
atgc intronic sequence ATGC exonic sequence...caatgctttcaatttccttaaaacaaaatcacaagtacaattggccctcttttcttgttctttatttttatgtgatatgatctctaatctcatggttcagGTTGCAAACTGGTTTATAAATGCACGGGTGCGTCTTTGGAAGCCCATGGTTGAGGAGATTTATAAAGAAGAGATTGGTGATTCAGAGACAAAGTCTAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g13150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G07710.1 (Glycine max), 3'ss of exon 4
caatgctttcaatttccttaaaacaaaatcacaagtacaattggccctcttttcttgttctttatttttatgtgatatgatctctaatct-catggttcagGTTGCAAACTGGTTTATAAATGCACGGGTGCGTCTTTGGAAGCCCATGGTTGAGGAGATTTATAAAGAAGAGATTGGTGATTCAGAGACAAAGTCTAAAT
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-gaaaatttgtttttgatggggatcaaacagtaaaaataagtgactgcctatagttttagtcctgtgacatgtttgctaatctttatttgattcatttcagGTGGCAAACTGGTTCATTAATGCAAGGGTGCGTCTATGGAAGCCAATGGTTGAGGAAATGTACAAAGAAGAATTTGGTGATTCTGAGATGAGCAGCAATC
upper sequence: Vv18s0001g13150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G37260.1 (Glycine max), 3'ss of exon 4
caatgctttcaatttccttaaaacaaaatcacaagtacaattggccctcttttcttgttctttatttttatgtgatatgatctcta---atctcatggttcagGTTGCAAACTGGTTTATAAATGCACGGGTGCGTCTTTGGAAGCCCATGGTTGAGGAGATTTATAAAGAAGAGATTGGTGATTCAGAGACAAAGTCTAAAT
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-aaaatttgtttttgatgggggatcaaacagtaaaaataagtgactgcctaaagtttttgtcctgtgccatgtttgctaatcttcatgtgattcatg--ttagGTGGCAAATTGGTTCATTAATGCAAGGGTGCGTCTTTGGAAGCCAATGGTTGAGGAAATGTACAAAGAAGAATTTGATGTTCAAGCTTCTGACAATAAAA
upper sequence: Vv18s0001g13150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G03150.1 (Glycine max), 3'ss of exon 5
-------------------------------caatgctttcaatttc----cttaaaacaaaatcacaagtacaattggccctcttttcttgttct----ttatttttatgtgatatgatctctaatctcatggttcagGTTGCAAACTGGTTTATAAATGCACGGGTGCGTCTTTGGAAGCCCATGGTTGAGGAGATTTATAAAGAAGAGATTGGTGATTCAGAGACAAAGTCTAAAT
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gtacattcttaaaaactgtttccattagaaactttgtttcctgcttaaatgttttaattaaactgacagtgacaagctaagtttcagctctgtaccatggttgttaatatttgttgagGCATTCAATGTTGATAT-CAGGTGGCAAATTGGTTCATCAATGCAAGGGTGCGTCTCTGGAAGCCAATGGTTGAGGAAATGTACAAAGAGGA-----------------------------
upper sequence: Vv18s0001g13150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G03200.1 (Glycine max), 3'ss of exon 4
---------------------------------caatgctttcaatttccttaaaacaaaatcacaag-tacaattggccctcttttcttgttctttatttttatgtgatatgatctctaatctcatggt-tcagGTTGCAAACTGGTTTATAAATGCACGGGTGCGTCTTTGGAAGCCCATGGTTGAGGAGATTTATAAAGAAGAGATTGGTGATTCAGAGACAAAGTCTAAAT
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gtacattgttaaaaacctagaattatgagctattgagattttgtttcctgtttaattaaactgacaagctaagtttcagttcagtaccatcatgattgttaatatttgatgaggaattcaatg--gtgatatcagGTGGCCAATTGGTTCATCAATGCAAGGGTGCGTCTCTGGAAGCCAATGGTTGAGGAAATGTACAAAGAGGAGTTTGGAGACTCCGAGATGAACTGCAACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctcttttcttgttctttatttttatgtgatatgatctctaatctcatggttcagGTTGCAAACTGGTTTATAAATGCACGGGTGCGTCTTTGGAAGCCCATGGTTGAGGAGATTTATAAAGAAGAGATTGGTGATTCAGAGACAAAGTCTAAAT
ctctaat putative branch site (score: 3)
tttcttgttctttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caatgctttcaatttccttaaaacaaaatcacaagtacaattggccctcttttcttgttctttatttttatgtgatatgatctctaatctcatggttcagGTTGCAAACTGGTTTATAAATGCACGGGTGCGTCTTTGGAAGCCCATGGTTGAGGAGATTTATAAAGAAGAGATTGGTGATTCAGAGACAAAGTCTAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
caatgct
- - - - - - - - - - aaacaaa
- - - - - - - - - - - - - - tcacaag