Sequence
atgc intronic sequence ATGC exonic sequence...atgatgaatgggagggagagagagtctctgaacttttctgttgtgttatttatttctatgtcctgattttgaaggagagaattttttgaactgtgtgtagGTGGATTGGACCCCAGAGCTGCATAGGAGGTTTGTGCAGGCAGTGGAGCAGCTAGGTGTGGATAAAGCAGTGCCTTCAAGGATTTTAGAGATTATGGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G13430.1 (Glycine max), 3'ss of exon 1
atgatgaatgggagggagagagagtc-tctgaacttttctgttgtgttatttatttctatgtcctgattttgaaggagagaattttttgaactgtgtgt--agGTGGATTGGACCCCAGAGCTGCATAGGAGGTTTGTGCAGGCAGTGGAGCAGCTAGGTGTGGATAAAGCAGTGCCTTCAAGGATTTTAGAGATTATGGGAA
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---ttttgtcaaataaaaataacttgatctgaagtatagtcatggggtatagtattttatgtgagtacgtatttatgcttctttttctgggttgtgtgtgtagGTGGATTGGACCCCAGAATTGCACAGGCGATTCGTGCAAGCTGTGGAACAGCTAGGAGTGGATAAGGCGGTGCCTTCAAGGATTTTGGAGATTATGGGAA
upper sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G44330.1 (Glycine max), 3'ss of exon 1
---atgatgaatgggagggagagagagtctctga-acttttctgttgtgttatttatttctatgtcctgattttgaaggagagaattttttgaactgtgtgtagGTGGATTGGACCCCAGAGCTGCATAGGAGGTTTGTGCAGGCAGTGGAGCAGCTAGGTGTGGATAAAGCAGTGCCTTCAAGGATTTTAGAGATTATGGGAA
| | | | || | | | ||| || | || || ||| | || | | | |||| || | || |||||||||||||||||||||||||| |||| || | || ||||| || ||||| |||||||| |||||||| || ||||||||||||||||| |||||||||||||
tttttttttggtctaactgaaaattcttatttgagacctaactcgagtattaat-atgtgagtatttatgttttttcttttc---ttatctgggttgtgtgtagGTGGATTGGACCCCAGAATTGCACAGACGATTCGTGCAAGCTGTGGAACAGCTAGGAGTGGATAAGGCGGTGCCTTCAAGGATTTTGGAGATTATGGGAA
upper sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G33430.1 (Glycine max), 3'ss of exon 1
atgatgaatgggagggagagagagtctctgaactt-ttctgttgtgttatt-tatttctatgtcctgattttgaaggagagaattttttgaactgtgtgtagGTGGATTGGACCCCAGAGCTGCATAGGAGGTTTGTGCAGGCAGTGGAGCAGCTAGGTGTGGATAAAGCAGTGCCTTCAAGGATTTTAGAGATTATGGGAA
| || ||| | || |||| | ||||| | |||||| || | || | || || | ||| | | ||| ||| |||||| ||||||||||||||||||| | || ||| | || ||||| |||||||||||||| || |||||||| || ||||||||||||||||| |||||||||||||
-gggggagggggggatgcagtgagtgttagaactggctttgttgtattgtagtaataata-atcgatttgttgtgtgcttgtttttcttgggttgtgtgaagGTGGATTGGACCCCAGAATTACACAGGCGATTCGTGCAAGCAGTGGAGCAGCTTGGAGTGGATAAGGCTGTGCCTTCAAGGATTTTGGAGATTATGGGAA
upper sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G37010.1 (Glycine max), 3'ss of exon 2
atgatgaatgggagggagagagagtc--tctgaacttttctgttgtgttatttatttctatgtcctgattttgaaggagagaattttttgaactgtgtgtagGTGGATTGGACCCCAGAGCTGCATAGGAGGTTTGTGCAGGCAGTGGAGCAGCTAGGTGTGGATAAAGCAGTGCCTTCAAGGATTTTAGAGATTATGGGAA
||| || || || | | | | | |||| || | || | ||| || | || | | ||| ||| | |||| ||||||||||||||||||| |||| ||| | || ||||| |||||||||||||| || |||||||| || |||||||| |||||||| |||||||||||||
gcagtgagtgttagaattttggaactggctttgatgtatgtattgtagtaataatgggtttgttgtg--tgtgtgtgtttgtttttcttgggttatgtgaagGTGGATTGGACCCCAGAATTGCACAGGCGATTCGTGCAAGCAGTGGAGCAGCTTGGAGTGGATAAGGCTGTGCCTTCTAGGATTTTGGAGATTATGGGAA
upper sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G20570.1 (Arabidopsis thaliana), 3'ss of exon 1
--atgatgaatgggagggagagagagtctctgaacttttctgttgtgttatttatttctatgtcctgattttgaaggagagaattttttgaactgtgtgtagGTGGATTGGACCCCAGAGCTGCATAGGAGGTTTGTGCAGGCAGTGGAGCAGCTAGGTGTGGATAAAGCAGTGCCTTCAAGGATTTTAGAGATTATGGGAA
|| | | | | | || | | | | | || |||| | | ||| || || || || |||||| ||||||||||||| |||||||| || ||||| || ||| |||||||||| ||| |||| ||||| ||||| || ||||| | ||| | ||| ||||||||
aaatagtcagctgcta--attgtgaattttatatagtatgtgaaaaagtattgaaaaaataatgaagatggtggttatatatatgttgggatgtgtgtgaagGTGGATTGGACACCAGAGCTACACAGGAGATTCGTGGAGGCAGTGGAACAGTTAGGAGTGGACAAAGCTGTTCCTTCTCGAATTCTGGAGCTTATGGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttatttctatgtcctgattttgaaggagagaattttttgaactgtgtgtagGTGGATTGGACCCCAGAGCTGCATAGGAGGTTTGTGCAGGCAGTGGAGCAGCTAGGTGTGGATAAAGCAGTGCCTTCAAGGATTTTAGAGATTATGGGAA
tcctgat putative branch site (score: 3)
aattttttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgatgaatgggagggagagagagtctctgaacttttctgttgtgttatttatttctatgtcctgattttgaaggagagaattttttgaactgtgtgtagGTGGATTGGACCCCAGAGCTGCATAGGAGGTTTGTGCAGGCAGTGGAGCAGCTAGGTGTGGATAAAGCAGTGCCTTCAAGGATTTTAGAGATTATGGGAA
- - - - -gggaggg
- - - - - - - - agagaga
- - - - - - - - - - - - -ctctgaa
- - - - - - - - - - - - - - - - - - -ctgttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaggaga