Sequence
atgc intronic sequence ATGC exonic sequence...ttatctggattgacttaggtgttttgtttggctttttttgttcgaaatattctcataagttggggtgactttaacctctgaacctgatgtgggtcttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G10430.3 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G10430.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G38960.2 (Glycine max), 3'ss of exon 5
ttatctggattgacttaggtgttttgtttggcttt--ttttgttcgaaatattctcataa-----gttggggtgacttt-aacctctgaacctgatgtgggtcttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
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------gggcggac--aggaattttatttggtttgcgtgttgatattgtcatccttacattgcatattgggaaaccttttggcaaataaacttactatatggttacagGTGGATATATCATCATTATTGTGCTATGGTGATGGCCCTCGTGAGTCTCACTTGGGAGATTAAAGGACAACCAGACTGTGCAAAAAAGCAG
upper sequence: AT4G10430.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 5
ttatctggattgacttaggtgttttgtttggctttttttgttcgaaatattctcataagttggggtgactttaacctctgaa---cctgatgtgggtcttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
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--aactgacaacaatatgatactgt-ttaaactttcatatatttggttagttttattagtatcatctgtcatagcttacaaaaaatcccatatgctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG
upper sequence: AT4G10430.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ12166 (Selaginella moellendorffii), 3'ss of exon 5
ttatctggattgacttaggtgttttgtttggctttttttgttcgaaatattctcataagttggggtgactttaacctctgaacctgatgtgggtc-ttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
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---------------------------------------gtatgtg-ttttatcctgttttgcgttttttgtccgtcttgaattgtctctttgtcgctcagGTGGGTATATCATCATTATTTTGCCATGGTTACAGCTCTTGTGAGTTTGACATGGGGCATTCAAGGGCACCCGTCGTGCGTTCGTAAACAGMapped 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|124718506|gb|EH809908.1|EH809908EST: GCTATGCGTGAGAATATATTAAGAGCTAACGGAAGCGATATTCGTCCATG GTGGCTATATCATCATTATTGTG
genomic: GCTATGCGTGAGAATATATTAAGAGCTAACGGAAGCGATATTCGTCCATGgtacttttat ... gggtcttcagGTGGCTATATCATCATTATTGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatattctcataagttggggtgactttaacctctgaacctgatgtgggtcttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
tcttc CT-rich tract
ataagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatctggattgacttaggtgttttgtttggctttttttgttcgaaatattctcataagttggggtgactttaacctctgaacctgatgtgggtcttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
- - - - - - - - - - - - tgtttgg