Sequence
atgc intronic sequence ATGC exonic sequencegtatgttttgtttgatggaaaatttcattgtttttacggtttgtggattgttcatagggtttgttttacaatttctagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAACCTCCTCAAAATCATTTCGGGGTCCTGGCATGATTGAAGGCCTGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g10784.1 (Oryza sativa), 3'ss of exon 2
gtatgttttgtttgatggaaaatttcattgtttttacggtttgt--ggat-tgttcatagggtttgttttacaatttctagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAACCTCCTCAAAATCATTTCGGGGTCCTGGCATGATTGAAGGCCTGAAG
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gtgagcagcaaactattgtaattttagttatttctgggatatatatgaatctgttttcctgctattttccctccacaatagGCTTGGTCTGCCACTTGTGTTCAAGTCCAGCTTTGATAAAGCAAATCGTACATCATCAAAATCCTTCCGTGGTCCTGGTCTGGAGGAAGGCCTGAAG
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G168510_T02 (Zea mays), 3'ss of exon 3
gtatgttttgtttgatggaaaatttcattgttttta------cggtttgtggattgttcatagggt-ttgttttacaatttc-----tagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAACCTCCTCAAAATCATTTCGGGGTCCTGGCATGATTGAAGGCCTGAAG
|| | || | | | | || ||| || | | | ||| | || | ||| || | | || ||| |||| | ||| || |||||||| |||||||||||||| || || || || ||||||||||| || |||||||| | ||||| || |||
gtgagcacgaagtggggatcagtctttttttttctaacaaaaccggggctaaattaaacctacactgttgcctttccctctccatgatagGCTTGGAATTCCGCTCGTGTTCAAGTCCAGCTTTGATAAAGCAAACCGTACATCATCAAAATCATTCCGTGGTCCTGGTCTTGAAGAAGGTCTTAAG
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G38010.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------gtatgttttgtttgatggaaa---atttcattgtttttac----------ggtttgtg---gattgttcatagggtt-----tgt-tttacaatttctagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAACCTCCTCAAAATCATTTCGGGGTCCTGGCATGATTGAAGGCCTGAAG
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gtatgtaattatctctatttatgattattttttttattaatgggaaaataaatgtgatttgatggaaatccattagaaaaagctagcaggaagaacgggtgtatatttgatagctaacatgatcttgagtgtatatgtgtcttccagAGTTGGAATACCGTTGGTTTTCAAGTCAAGCTTTGACAAAGCTAACCGAACATCATCAAAATCATTTCGTGGCCCGGGGATGGTTGAGGGATTGAAG
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G48370.1 (Glycine max), 3'ss of exon 2
---------------------gtatgttttgtttgatggaaaatttcattgtttttacggtttgtggattgt-tcatagggtttgt-tttacaatttctagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAACCTCCTCAAAATCATTTCGGGGTCCTGGCATGATTGAAGGCCTGAAG-
| ||| || || | || | | ||| ||||| |||| | | | || | ||| | | || ||| |||| | ||||||||||||| |||||||| ||||| || ||||| || |||||||||||||| || || || ||| ||| || |||||
aagggtcaaagttaaaattgtgaatgaaatggtttgtagaca-tgatattagttttatc-tttgaagctaacatgatcttgagtgtatatgtgtctttcagaGTTGGAATACCATTGGTTTTCAAGTCAAGCTTTGACAAAGCTAACCGAACATCATCAAAATCATTTCGTGGCCCGGGGATGGCTGAGGGATTGAAGG
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G79500.2 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------------------------------------------------------------gtatgttttgtttgatggaaaatttcattgtttttacggtttgtggattg--ttcatagggtttgttt-tacaatt--tctagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAACCTCCTCAAAATCATTTCGGGGTCCTGGCATGATTGAAGGCCTGAAG
| | ||||| | || | |||| | | | | || | | || ||| | | | | | |||| ||||| || |||||||||||||| || ||||||||||| || |||| || ||||| |||||||| |||||||||||| || || ||||||
gtatgatttcttgtactccgtttttccccctgagagatctttgtatgaatgtgtattgatctctatatgaaaattgattacagtagagaactcaactgagagatgaactttgaacaatgtgttttcttttttcaagatcctcatgctacttttgttgtgtctgtgtgtgtgaatggtgtagAGTTGGGCTGCCCCTGGTTTTCAAGTCAAGTTTTGATAAAGCTAACAGAACTTCTTCAAAGTCATTTCGTGGTCCTGGCATGGCCGAGGGTCTGAAG
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ32189 (Selaginella moellendorffii), 3'ss of exon 1
gtatgttttgtttgatggaaaatttcattgtttttacggtttgtggattgttcatagggtttgttttacaatttctagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAACCTCCTCAAAATCATTTCGGGGTCCTGGCATGATTGAAGGCCTGAAG
| | | | | | || | || |||| | || || ||| || || | ||||| || || |||||||||||||| |||||||||||||||||| | | || || |||||||| || || ||||| ||||
----------------------gtgagtagctcctccatttccttcctttctcatcgatttc--ttcacagGCTCCAG-------CTCAAGCTCGTGTTTAAGTCGAGCTTTGACAAAGCCAATCGAACCTCCGCGCACTCTTTCCGGGGTCCGGGACTGGAAGAAGGACTGAGAMapped 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|110708160|gb|EE085385.1|EE085385EST: GAGGAGCACATTATGTATATGGCCAAAGCCATCAAGAGTCTCACATCAAA ATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAAC
genomic: GAGGAGCACATTATGTATATGGCCAAAGCCATCAAGAGTCTCACATCAAAgtatgttttg ... caatttctagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAAC
EST:
gi|30252416|gb|CB969967.1|CB969967EST: GAGGAGCACATTATGTATATGGCCAAGGCCATCAAGAGTCTCACATCAAA ATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAGGCCAATCGAAC
genomic: GAGGAGCACATTATGTATATGGCCAAAGCCATCAAGAGTCTCACATCAAAgtatgttttg ... caatttctagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcattgtttttacggtttgtggattgttcatagggtttgttttacaatttctagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAACCTCCTCAAAATCATTTCGGGGTCCTGGCATGATTGAAGGCCTGAAG
tttct CT-rich tract
tttgttttacaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttttgtttgatggaaaatttcattgtttttacggtttgtggattgttcatagggtttgttttacaatttctagATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAACCTCCTCAAAATCATTTCGGGGTCCTGGCATGATTGAAGGCCTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG