Sequence
atgc intronic sequence ATGC exonic sequencegtattataattcgtatttttttgaggaatctcttaagcaagtctacttttctttcaccgggtttgaactgaatgttaactgtatttgtgcagTGGGTTAGTCTTGAAGAAGCTTGACAAAAAACTGGAAAGGACACTCCTACATTCATATCGTAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G46220.3 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G46220.3 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA12G07980.1 (Glycine max), 3'ss of exon 14
---gtattataattcgtatttttttgaggaatctcttaagcaagtctacttttctttcaccgggtttgaactgaatgttaac--------tgt------atttgtgcagTGGGTTAGTCTTGAAGAAGCTTGACAAAAAACTGGAAAGGACACTCCTACATTCATATCGTAAG
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gtaatgtgtctttttttttttctttgtaggactttatcattgatttgacctccagttcttctgtcctgatgtgaaccctaatacatagcttgttcattaatttttccagTGGGTTGCCTTTGAAAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGTAAG
upper sequence: AT3G46220.3 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA11G15470.1 (Glycine max), 3'ss of exon 15
gtattataattcgtatttttttgaggaatctcttaagcaagtctacttttctttcaccgggtttgaactgaatgttaac--------tgt------atttgtgcagTGGGTTAGTCTTGAAGAAGCTTGACAAAAAACTGGAAAGGACACTCCTACATTCATATCGTAAG
||| | | | | ||| |||| | | | | | | | || | ||| | | ||| |||| ||| ||| |||| | ||||||||| ||||| ||||||||||| ||||| ||||| ||||| ||||||||||||| |||
gtaatgtg-tctatttttgtttgtaggactttatcattgatttgacctccagttcttctgtcctgatgtgaaccctaatacatagtttgttcattaatttttacagTGGGTTGCCTTTGAAAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAG
upper sequence: AT3G46220.3 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv06s0004g03970.t01 (Vitis vinifera), 3'ss of exon 15
------------------------------------------------------------------gtattataattcgtatttttttgaggaatctcttaagcaagtctacttttctttcaccgggtttgaactgaatgttaactgtatttgtgcagTGGGTTAGTCTTGAAGAAGCTTGACAAAAAACTGGAAAGGACACTCCTACATTCATATCGTAAG
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gtagtatggtgctttattctctctctctctctatatatatatgtgtgtgtgtgtgtgtgtgtgtgtgtgttcctgttatgtagcttccatggttactggggagcatctgtattaacatggcacttagcatgtgcattttgtga--tgcatttttgcagTGGGTTACTCTTGAAAAAGCTTGATAAGAAATTGGAAAGAACACTCCTGCATTCATATCGTAAGMapped 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|164078730|gb|ES036628.1|ES036628EST: CGTGTAGACACTTTCATGGTCACCTTCAGAGACCTGGCAGAAGAAAG TGGGTTAGTCTTGAAGAAGCTTGACAAAAA
genomic: CGTGTAGACACTTTCATGGTCACCTTCAGAGACCTGGCAGAAGAAAGgtattataat ... atttgtgcagTGGGTTAGTCTTGAAGAAGCTTGACAAAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caagtctacttttctttcaccgggtttgaactgaatgttaactgtatttgtgcagTGGGTTAGTCTTGAAGAAGCTTGACAAAAAACTGGAAAGGACACTCCTACATTCATATCGTAAG
tgttaac putative branch site (score: 2)
ttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattataattcgtatttttttgaggaatctcttaagcaagtctacttttctttcaccgggtttgaactgaatgttaactgtatttgtgcagTGGGTTAGTCTTGAAGAAGCTTGACAAAAAACTGGAAAGGACACTCCTACATTCATATCGTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC