Sequence
atgc intronic sequence ATGC exonic sequence...ggtcactggacgtgctaaaattaggctaatgtcttaaaagaggggtctcaaaaagaagcatattgttcacataataatcccttgtaactcgtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 8
ggtcactggacgtgctaaaattaggctaatgtcttaaaagaggggtctcaaaaagaagcatattgttc-acataataatcccttgtaactc--gtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
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--tggcttgacttga-aacagtgattttacattgtttgtcatttatatgaggtggaaatagaatattctgaataatcatctaactcagttcacatggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAACGCGGTAACCAACTTTGAGATGAATAGATATGATGTGGA
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G33240.1 (Glycine max), 3'ss of exon 8
ggtcactggacgtgctaaaattaggctaat-gtcttaaaagaggggtctcaaaaagaagcatattgttcacataataatc---ccttgtaactcgtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
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tttgacttgaaacagttagtttacattagttatcatttatatgaggt----ggaaatagaatattccatgaataatcatctaactcagttccacatggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATTAAGTTCAGAGGTGCAAACGCAGTAACCAACTTTGAGATGAATAGATATGATGTGGA
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G38190.1 (Glycine max), 3'ss of exon 6
ggtcactggacgtgctaaaattaggctaatgtcttaaaagaggggtctcaaaaagaagcatattgttcacat---aataatcccttgtaact-cgtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
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---gacttgaaa-gttgaaacaagtcttcttacttacattttctataatgtttgttttattattatttgaacttgaagaaattttggttcttgcattgtttcagCAACTGAAGAGGAGGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGTTCGAGCGCCGTAACCAATTTCGAGATGAGTCGATATGACGTCGA
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G29400.1 (Glycine max), 3'ss of exon 4
--------ggtcactggacgtgctaaaattaggctaatgtcttaaaagaggggtctca----aaaagaagcatattgttcacat-----------aataatcccttgtaactcgtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
||| | | | |||| || | | ||| | | || | || | |||| || | |||| | | | | | || |||| || |||||||| ||||||||||||||||| || ||||||||||||||||| |||| | ||| || |||||||||
tgatagcatgtcttgaaagttaaaacaatttttcttacatgttagataatggttaccattttgtttgttttttattttttattcttttgaacttgaatagTTTTGGTTCATGCATTGTTACAGCAACTGAAGAGGAGGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAGTGCCGTAACCAATTTC-----------------------
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G65510.1 (Arabidopsis thaliana), 3'ss of exon 7
ggtcactggacgtgctaaaattaggctaatgtcttaaaagaggggtctcaaaaagaagcatattgttcacataataatcccttgtaactcgtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
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--------------------gtaaaacgttatcttagtagacaaatgtcctattcttcaccctgaaaaatccagtcattgattcgtatatatgtgtatagCAACCGAAGAGGAAGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGAATCAACGCAGTAACTAACTTTGAGATGAACAGGTATGACATTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcaaaaagaagcatattgttcacataataatcccttgtaactcgtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
ttgtaac putative branch site (score: 2)
acataataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtcactggacgtgctaaaattaggctaatgtcttaaaagaggggtctcaaaaagaagcatattgttcacataataatcccttgtaactcgtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- -cactgga
- - - - - - - - aaaatta
- - - - - - - - - - - - gctaatg
- - - - - - - - - - - - - - - - - -aaaagag
- - - - - - - - - - - - - - - - - - - - - - - - - aaaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacataa