Sequence
atgc intronic sequence ATGC exonic sequence...ttttgtttgagttggattctttgtcgtttaatattccttttattgctactgaaattatgcattatcacttctgaagattctcttgctgacttacatgcagGAAGCAAAGCAGGCATTAGAACTGATGGGCAAGTGGGAAATGATAGATGTGTGCGATGCATTGGAGCTTCTGTCTCCTGTTTTTGAAAGTGAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G10090.1 (Glycine max), 3'ss of exon 7
--------ttttgtttgagttggattctttgtcgtttaatattccttttattgctactgaaattatgcattatcacttctgaagattctcttgctgacttacatgcagGAAGCAAAGCAGGCATTAGAACTGATGGGCAAGTGGGAAATGATAGATGTGTGCGATGCATTGGAGCTTCTGTCTCCTGTTTTTGAAAGTGAAGAG
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tcttgaataattatcttatctctattttttttctcttga-attc---ttattgctaaaaaaac-acgggtaaaaattatcattg--tccaatgctgtttt-tatccagGAAGCAAAACAAGCATTAGAGTTGATGGGCAAGTGGGAAATGATTGATGTTTGTGATGCACTGGAACTTTTGTCGCCTGTTTTTGAAAGTGAAGAG
upper sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G10090.1 (Glycine max), 3'ss of exon 7
ttttgtttgagt-tggattctttgtcgtttaatattccttttattgctactgaaattatgcattatcacttctgaagattctct--tgctgacttacatgcagGAAGCAAAGCAGGCATTAGAACTGATGGGCAAGTGGGAAATGATAGATGTGTGCGATGCATTGGAGCTTCTGTCTCCTGTTTTTGAAAGTGAAGAG
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tcttgaataattatcttatctctatattttttttcttgaattcttattgctaaaa--aaacactggtagaaattatcattgtccaatgctgtttttc-tacagGAAGCCAAACAAGCATTAGAATTGATGGGCAAGTGGGAAATGATTGATGTTTGTGATGCACTGGAACTTTTGTCGCCTGTTTTTGAAAGTGAAGAG
upper sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G60490.1 (Arabidopsis thaliana), 3'ss of exon 7
ttttgtttgagttggattctttgtcgtttaatattccttttattgctactgaaattatgcattatcacttctgaagattctcttgctgacttacatgcagGAAGCAAAGCAGGCATTAGAACTGATGGGCAAGTGGGAAATGATAGATGTGTGCGATGCATTGGAGCTTCTGTCTCCTGTTTTTGAAAGTGAAGAG
| ||| |||| | | || | ||| || | | | ||||| ||| | | ||| ||| | || || ||||||||||||||| ||| | |||||||| ||| ||||||||||||||||| || ||||| |||||||| |||||||| | ||||| |||||||||
------gtaagtgtacaacttttacttgtagatctattttcatggttctt---attattcat----gttgcataagcttcccgtgttg--------gcagGAAGCAAAGCAAGCAATTCAACTGATGTACAAATGGGAAATGATAGATGTATGTGATGCTTTGGAGCTATTGTCTCCTCTATTTGAGAGTGAAGAG
upper sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ14829 (Selaginella moellendorffii), 3'ss of exon 7
ttttgtttgagttggattctttgtcgtttaatattccttttattgctactgaaattatgcattatcacttctgaagattctcttgctgacttacatgcagGAAGCAAAGCAGGCATTAGAACTGATGGGCAAGTGGGAAATGATAGATGTGTGCGATGCATTGGAGCTTCTGTCTCCTGTTTTTGAAAGTGAAGAG----
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--------------------------------------------------gtattagctagttgttattgttta----tctataactacttttggtgcagGAAGCAAAGCAGGCATTGGAACTAATGCACAAGTGGACTACGATTGACATCGCTGACGCGTTGGAGCTTTTATCGCATGCTTTTGAAAGTGAGGAGGTTC
upper sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ26575 (Selaginella moellendorffii), 3'ss of exon 6
ttttgtttgagttggattctttgtcgtttaatattccttttattgctactgaaattatgcattatcacttctgaagattctcttgctgacttacatgcagGAAGCAAAGCAGGCATTAGAACTGATGGGCAAGTGGGAAATGATAGATGTGTGCGATGCATTGGAGCTTCTGTCTCCTGTTTTTGAAAGTGAAGAG----
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--------------------------------------------------gtattagctagttgttattgttta----tctataactacttttggtgcagGAAGCAAAGCAGGCATTAGAACTAATGCACAAGTGGACTACGATTGACATCGCTGACGCGTTGGAGCTTTTATCGCATGCTTTTGAAAGTGAGGAGGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctactgaaattatgcattatcacttctgaagattctcttgctgacttacatgcagGAAGCAAAGCAGGCATTAGAACTGATGGGCAAGTGGGAAATGATAGATGTGTGCGATGCATTGGAGCTTCTGTCTCCTGTTTTTGAAAGTGAAGAG
gacttac putative branch site (score: 2)
aaattatgcattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgtttgagttggattctttgtcgtttaatattccttttattgctactgaaattatgcattatcacttctgaagattctcttgctgacttacatgcagGAAGCAAAGCAGGCATTAGAACTGATGGGCAAGTGGGAAATGATAGATGTGTGCGATGCATTGGAGCTTCTGTCTCCTGTTTTTGAAAGTGAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - gagttgg
- - - - - - - - - - - - - - - - - - - - - ttgctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttctga