Sequence
atgc intronic sequence ATGC exonic sequencegtgagaatgcccctctttcgttaatcagatccatgtcttatatacttaagaattattcttacaacaattggatgctttcattgcagTGGTATAGAAGCCCTGGAAAGGAAGGCTCCCACTTCAATCCTTACAGTGATATGTTCCCAATCAGTGAAAGAAAGGCCGTGCTCACTTCAACTGTATGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G37350.2 (Glycine max), 3'ss of exon 4
------------------------gtgagaatgc--ccctctttcgttaatcagatccatgtcttatatacttaagaattattcttacaacaattggatgctttcattgcagTGGTATAGAAGCCCTGGAAAGGAAGGCTCCCACTTCAATCCTTACAGTGATATGTTCCCAATCAGTGAAAGAAAGGCCGTGCTCACTTCAACTGTATGCT
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gtgagtgcttttttttttttacttggaagactacaacacattattattattataat--atggttcaaatcaatgacttttaatttctttgtgat-gtgcactccattttcagTTCTCAAGAAGCCCCGGAAAGGAAGGTTCTCACTTCAATCCCTACAGCAATCTGTTCCCACCCAGTGAGAGAAAGGGAATAGCAATATCAACACTGTGTT
upper sequence: Vv06s0004g06720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G39230.1 (Glycine max), 3'ss of exon 4
gtgagaatgcccctctttcgttaatcagatccatgtctt-------atatacttaagaatta-----ttcttacaacaattggatgctttcattgcagTGGTATAGAAGCCCTGGAAAGGAAGGCTCCCACTTCAATCCTTACAGTGATATGTTCCCAATCAGTGAAAGAAAGGCCGTGCTCACTTCAACTGTATGCT
||||| | | | | || || | | |||| || | || | || | | || || || ||| | |||||||| |||||||||||||| ||||||||||| ||||| || |||| ||| |||||| ||||| | | | ||||| | || |
gtgagtgattttttgacttggaagacaacaacacattattattataatatggttcaaaacaatgactttttctttatgatgtgaactccattttttagTTTTCAAGAAGCCCCGGAAAGGAAGGCTCTCACTTCAATCCCTACAGCAATCTGTTTCCACCCAGTGAGAGAAAAGGAATAGCAATATCAACACTGTGTT
upper sequence: Vv06s0004g06720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G06950.1 (Glycine max), 3'ss of exon 4
-----------------------------------------------------------------gtgagaatgcccctctttcgttaatcagatccatg--tcttatatacttaagaat----tattcttacaacaattggatgctttcattgcagTGGTATAGAAGCCCTGGAAAGGAAGGCTCCCACTTCAATCCTTACAGTGATATGTTCCCAATCAGTGAAAGAAAGGCCGTGCTCACTTCAACTGTATGCT
| ||| | | | | | | | | | |||| | || || ||| || || | | ||| |||||| |||||||||||||| |||||||| || ||||| |||||||| | ||||| | |||| |||| | ||||| ||||||||| | ||
ggtgagaccctctttttccagaatgacagcattattttactatatagtacctcaatttttatatttctaaaattttgaattcttgaaattgaaaggaaaggactttattgggtctagcatctcactctctctttgtgatatgaaccatatatttcaGTGGAGCAGAAGCCCTGGAAAAGAAGGCTCTCATTTCAACCCTTACAGCAACTTGTTCTCTCCTGGTGAGAGAAGAGATGTGCTAACTTCAACTCTGTGT- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtcttatatacttaagaattattcttacaacaattggatgctttcattgcagTGGTATAGAAGCCCTGGAAAGGAAGGCTCCCACTTCAATCCTTACAGTGATATGTTCCCAATCAGTGAAAGAAAGGCCGTGCTCACTTCAACTGTATGCT
ttcttac putative branch site (score: 2)
ctttcatt putative PPT
ttatatacttaagaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaatgcccctctttcgttaatcagatccatgtcttatatacttaagaattattcttacaacaattggatgctttcattgcagTGGTATAGAAGCCCTGGAAAGGAAGGCTCCCACTTCAATCCTTACAGTGATATGTTCCCAATCAGTGAAAGAAAGGCCGTGCTCACTTCAACTGTATGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA