Sequence
atgc intronic sequence ATGC exonic sequenceATGTCTTGGAGAGCTTAATAAAGATGGAAAGTCGCAAATTCCTCCTGTTGGAGTTATTCCTCTCGGTACAGGGAATGATCTTTCAAGGAGTTTTGGTTGGgtgagttgtgttttctttgttctctcttatgttgtcgtgacaaaacttttgaattggtactgactatggtatctcttcttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G18730.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G18730.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os08g15090.1 (Oryza sativa), 5'ss of exon 4
ATGTCTTGGAGAGCTTAATAAAGATGGAAAGTCGCAAATTCCTCCTGTTGGAGTTATTCCTCTCGGTACAGGGAATGATCTTTCAAGGAGTTTTGGTTGGgtgagttg-tgttttctttgttctctcttatgttgtcgtgacaaaacttttgaattggtactgactatggtatc----tcttcttcag
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ATGTTTAGGAGACCTTTATGTTCAGAACAGGGAACCAATTCCTCCAGTTGCTGTTATACCACTTGGGACAGGAAATGATCTTTCCAGGAGTTTTGGCTGGgtaaaacgatctctttcttgcactctttc-cgtcttcct-atgaagctactta-ctgcaagttttcatgacctcacagttattttcag
upper sequence: AT2G18730.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv11s0052g01840.t01 (Vitis vinifera), 5'ss of exon 3
ATGTCTTGGAGAGCTTAATAAAGATGGAAAGTCGCAAATTCCTCCTGTTGGAGTTATTCCTCTCGGTACAGGGAATGATCTTTCAAGGAGTTTTGGTTGGgtgagttgtgttttctttgttctctcttat-gttgtcgtgacaaaacttttgaattggtactgactatggtatctcttcttcag
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TAGTCTTGGAGAGCTTGACAAACAGAATCGTGAACCAGTTCCTCCTGTTGGAATTATTCCACTCGGAACAGGCAATGATTTGTCTAGGAGTTTTGGTTGGgtaagct-ttttctctgcatccaacattccagttttcttaatgatgtatcttcaaaag--ctgtcctttgtatgcttccttcagMapped 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|125261591|gb|EL275676.1|EL275676EST: TGATCTTTCAAGGAGTTTTGGTTGG GGTGGTTCGTTTCCTTTTGCGTGGAGATCTGCTGTTAAAAGAACACTCCAT
genomic: TGATCTTTCAAGGAGTTTTGGTTGGgtgagttgtg ... tcttcttcagGGTGGTTCGTTTCCTTTTGCGTGGAGATCTGCTGTTAAAAGAACACTCCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGTCTTGGAGAGCTTAATAAAGATGGAAAGTCGCAAATTCCTCCTGTTGGAGTTATTCCTCTCGGTACAGGGAATGATCTTTCAAGGAGTTTTGGTTGGgtgagttgtgttttctttgttctctcttatgttgtcgtgacaaaacttttgaattggtactgactatggtatctcttcttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG