Sequence
atgc intronic sequence ATGC exonic sequence...cattctaggcggtgaacccaaacatccaacaacacaataaaattctacctgtagctggtgatataatgcatttacagccactcatctcttttctgtacagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTGGATGAACTACCAAGGAGCCCAAGAAGCTCGCAAGCAAATGAAGGTCCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os09g34860.1 (Oryza sativa), 3'ss of exon 7
cattctaggcggtgaacccaaacatccaacaacacaataaaattctacctgtagctggtgatataatgcat-ttacagccactcatctcttt--tctgta-cagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTGGATGAACTACCAAGGAGCCCAAGAAGCTCGCAAGCAAATGAAGGTCCCA
| ||| | | | | | | | || | ||| | || ||| |||| | | || | | | | | || |||| ||| ||||| || |||||||||||||| ||||| ||||||||| ||||||||||||| |||||||| || || |||| || || ||||||| |||||
-ttattagctgactcatttt--ccttttgtgatttttcatggtgct-cttgtttttagtcataccatgcttctcactgtctcactgccctaaaacttgtaacagTGCATCCGATTGGAAAGTGCCAACTACTTTCATATATGGCCAACAAGATTGGATGAATTACCAAGGTGCACAGCAAGCACGGAAAGAAATGAAAGTCCCC
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G079109_T01 (Zea mays), 3'ss of exon 7
------cattctaggcggtgaacccaaacatccaacaacacaataaaattctacctgtagctggtgatataatgcatttacagccactcatctcttttctgta-cagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTGGATGAACTACCAAGGAGCCCAAGAAGCTCGCAAGCAAATGAAGGTCCCA
|||||| | | || || |||| | || | | || | ||||| || | || ||| |||| || | |||||| || || ||||||||||| || ||||| |||||||| |||||||||||||||||||||| || || |||| || ||| | ||||| || ||
aacaagcattctgaatg-tcaatgaaagcatc----atttcatttggagtcaatggagtctctgtgatgtatagtgattct--ttactgtcctctaacttgcaacagCGCGTCCGATTGGAAAGTGCCGACTACTTTCATATATGGGCAGCAAGATTGGATGAACTACCAAGGCGCTCAGCAAGCACGGAAGGACATGAAAGTTCCT
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G02920.1 (Glycine max), 3'ss of exon 5
cattctaggcggtgaacccaaacatccaacaacacaataaaattctacctgtagctggtgatataatgcatttacagccactcatctcttttctgt-acagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTGGATGAACTACCAAGGAGCCCAAGAAGCTCGCAAGCAAATGAAGGTCCCA----------
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-------aaaatcggattcctcctttactggtcttcatgcactactattcttgattttgtgtgcaatgtttt----atcatccatcactttggtgttgcggtgcctctgagTGGAAGGTGCCCACCACTTTCATATATGGTTTCCAAGACTGGATGAATTATCAAGGTGCCCAAGAAGCTCGCAAGCATATGAAGGTTCCATGCGAAATCA
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G02900.2 (Glycine max), 3'ss of exon 5
---cattctaggcggtgaacccaaacatccaacaacacaataaaattctacctgtagctggtgatataatgcatttacagccactcatctcttttctgt-acagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTGGATGAACTACCAAGGAGCCCAAGAAGCTCGCAAGCAAATGAAGGTCCCA
|| || | | | || | || | ||| | | | |||| | | | |||| |||| ||| ||| || ||||| ||||| ||||| |||||||| || ||||| || |||| |||||||| || ||||| |||||||||||||||||||| |||||||| |||
ctgtgttttaaaatacggattcctcattcacttgtcttgatgcaccactattcttgattttgtgtgcaatgttt----aatcctccatcactttggtgttgcagTGCCTCAGAGTGGAAGGTGCCCACCACTTTCATGTATGGTTTCCAAGACTGGATGAATTATCAAGGTGCCCAAGAAGCTCGCAAGCATATGAAGGTTCCA
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G40620.1 (Glycine max), 3'ss of exon 7
--cattctaggcggtgaacccaaacatccaacaacacaataaa-attctacctgtagctggtgatataatgcattta-cagccactcatctcttttctgtacagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTGGATGAACTACCAAGGAGCCCAAGAAGCTCGCAAGCAAATGAAGGTCCCA
||| | | || || | || | | || | | || |||| | || |||| | ||| | ||||| || | |||| || ||||| ||||| ||||| ||||| || |||||||| ||| | || |||||||| || |||||||||||||||| ||||| ||||||||||| |||
ttgcttcaaattaaccactcctcttgatacttaatttattacatgtactccacttggcgggtg---tggtgtttttaacctccatttctctctgtttt-cacagTGCTTCAGAGTGGAAGGTGCCTACCACCTTCATATATGGTTTTCAGGACTGGATGAATTATGAAGGAGCCCAAGAAGCACGCAAACAAATGAAGGTTCCA
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G37460.1 (Glycine max), 3'ss of exon 7
cattctaggcggtgaacccaaacatccaacaacacaataaaattctacctgtagc--tgg--tgatataatgcattta-cagccactcatctcttttctgtacagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTGGATGAACTACCAAGGAGCCCAAGAAGCTCGCAAGCAAATGAAGGTCCCA
| ||| | || | | ||| | || | | | ||| |||| || |||| | ||| |||| | ||| | ||||| | | |||| |||||||| ||||| ||||| ||||| || |||||||| ||| | || |||||||| || |||| || |||||||||||||| |||||||| || |||
--ctatag-cttcaaattaacaactcctcttatact-tgagttattacgtgtactcttgacttgatgtgatgtttttagcctccatttctctctgcttt-cacagTGCATCAGAGTGGAAGGTGCCCACCACCTTCATATATGGTTTTCAGGACTGGATGAATTATGAAGGTGCGCAAGAAGCTCGCAAACAAATGAATGTTCCA
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G24160.1 (Arabidopsis thaliana), 3'ss of exon 7
cattctaggcggtgaacccaaacatccaacaacacaataaaattctacctgtagctggtgatataatgcatttacagccactcatctcttttctgtacagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTGGATGAACTACCAAGGAGCCCAAGAAGCTCGCAAGCAAATGAAGGTCCCA
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-----------------------gtatgtccac-caaaaacattgctgataaagtttctg-catact-cacactcgatgactc--ctcttttgtgtgcagTGCATCAGAGTGGAAAGTGCCAACAACGTTTATCTATGGAATGAATGATTGGATGAACTATCAAGGTGCGGTGGAAGCGAGGAAATCCATGAAGGTCCCTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110714661|gb|EE091822.1|EE091822EST: AAATACATATTTTCATTTGGAGCATTTGCTCGGTTGCCCCTTCTGCACAG CGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTG
genomic: AAATACATATTTTCATTTGGAGCATTTGCTCGGTTGCCCCTTCTGCACAGgtttgttggt ... ttctgtacagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTG
EST:
gi|28963886|gb|CB342919.1|CB342919EST: AAATACATATTTTCATTTGGAGCATTTGCTCGGTTGCCCCTTCTGCACAG TGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTCGAAGATTG
genomic: AAATACATATTTTCATTTGGAGCATTTGCTCGGTTGCCCCTTCTGCACAGgtttgttggt ... ttctgtacagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacctgtagctggtgatataatgcatttacagccactcatctcttttctgtacagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTGGATGAACTACCAAGGAGCCCAAGAAGCTCGCAAGCAAATGAAGGTCCCA
ccactcatctcttttc CT-rich tract
atataatgcattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattctaggcggtgaacccaaacatccaacaacacaataaaattctacctgtagctggtgatataatgcatttacagccactcatctcttttctgtacagCGCATCAGAATGGAAAGTGCCAACCACTTTTATATATGGCTTTGAAGATTGGATGAACTACCAAGGAGCCCAAGAAGCTCGCAAGCAAATGAAGGTCCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - -ggcggtg
- - - - - - - - -ccaaaca
- - - - - - - - - - - - -ccaacaa
- - - - - - - - - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - - - - - -tacctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - ctggtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acagcca