Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgagactagccagatattttctttaacctgaatttacattgtagctcaaggaattcgagtttttcattttgcagGAGCTTTTAGCGTTTCTGCTGGATGGTCTTCACGAGGACCTAAATCGTGTTAAACACAAACCATATATAAATTCTCGAGACGCAGATGGGCGCCCTGATG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G40930.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G40930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA03G27790.1 (Glycine max), 3'ss of exon 7
gtttgtgagactagccagatattttctttaacctgaatttacattgtagctcaagg---aattcgagtt-tttcattttgcagGAGCTTTTAGCGTTTCTGCTGGATGGTCTTCACGAGGACCTAAATCGTGTTAAACACAAACCATATATAAATTCTCGAGACGCAGATGGGCGCCCTGATG
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gttcacctgttgactgaaagttttaccctcttcaatttctatggtgtagtctgtggtaacatttgttttgttatctttttcagGAGCTTTTAGCATTTCTTCTTGATGGTCTTCATGAAGACTTGAATCGTGTAAAGCACAAACCATATATAAAATCTCGAGATGCTGATGGCCGACCTGATG
upper sequence: AT2G40930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA19G30650.1 (Glycine max), 3'ss of exon 7
gtttgtgagactagccagatattttctttaacctgaatttacattgtagctcaagg-aattcgagtttttca---ttttgcagGAGCTTTTAGCGTTTCTGCTGGATGGTCTTCACGAGGACCTAAATCGTGTTAAACACAAACCATATATAAATTCTCGAGACGCAGATGGGCGCCCTGATG
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gttcacccattgactgaaagttttaccctcttcaatttctatgtcgtagtccgtggtaacatttgttttaccatctttttcagGAGCTTTTAGCATTTCTTCTTGATGGTCTTCATGAAGACTTGAATCGTGTAAAGCACAAACCATATATAAAATCTCGAGATGCCGATGGCCGGCCTGATG
upper sequence: AT2G40930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv00s0174g00150.t01 (Vitis vinifera), 3'ss of exon 7
--------gtttgtgagactagccagatattttctttaacc-tg---aatttaca---ttgtagctcaaggaattcgagttt-ttcatttt---gcagGAGCTTTTAGCGTTTCTGCTGGATGGTCTTCACGAGGACCTAAATCGTGTTAAACACAAACCATATATAAATTCTCGAGACGCAGATGGGCGCCCTGATG
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gttttttactttgcataaacctccattcattctatcagatcatgtatgatgtgcagttttatcattcaaatggttattatttatttattttcgtgcagGAGCTCTTAGCATTTTTATTGGATGGTCTTCATGAAGATCTGAATCGTGTCAAGCACAAACCTTACATAAAGTCTAGAGATGCTGATGGGAGGCCTGATGMapped 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|116470354|gb|EG512946.1|EG512946EST: TTGCTCGCTTTGCTCCTCAATTTAGTGGGTACAATCAACATGATTCGCAG GAGCTTTTAGCGTTTCTGCTGGATGGTCTTCACGAGGACCTAAATCGTGTT
genomic: TTGCTCGCTTTGCTCCTCAATTTAGTGGGTACAATCAACATGATTCGCAGgtttgtgaga ... cattttgcagGAGCTTTTAGCGTTTCTGCTGGATGGTCTTCACGAGGACCTAAATCGTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttaacctgaatttacattgtagctcaaggaattcgagtttttcattttgcagGAGCTTTTAGCGTTTCTGCTGGATGGTCTTCACGAGGACCTAAATCGTGTTAAACACAAACCATATATAAATTCTCGAGACGCAGATGGGCGCCCTGATG
ctttaac putative branch site (score: 3)
tttttcatttt putative PPT
tttttcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgagactagccagatattttctttaacctgaatttacattgtagctcaaggaattcgagtttttcattttgcagGAGCTTTTAGCGTTTCTGCTGGATGGTCTTCACGAGGACCTAAATCGTGTTAAACACAAACCATATATAAATTCTCGAGACGCAGATGGGCGCCCTGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG