Sequence
atgc intronic sequence ATGC exonic sequenceGTATAAATTTGACGATGAACGGGTCACGAAAGAAGATGTCAAAAGAGCACTGGAAGAGCAATATGGTGGTGAAGAAGAGgtagcactctctttcgaggttttctttattttctttgttatttttttttactgaatttactttcaaatttggtttctcttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G11910.2 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 5'ss of exon 12
GTATAAATTTGACGATGAACGGGTCACGAAAGAAGATGTCAAAAGAGCACTGGAAGAGCAATATGGTGGTGAAGAAGAGgtagcactctctttcg--aggttttctttattttc--tttgttattttttt--ttactgaatttactttcaaatttggtttctct--tcag-----------------------------
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GTATAAATTTGATGATGAACGAGTAACAAAAGAAGATACCAAAAAAGCCCTTGAAGAGCAGTATGGGGGTGAAGAAGAGgtcgtttttactattaataactgttcattaagtgcaattcactgatttagtggttgcagcaatttccctcatcttgtatttatgtcatcatcttatttgtttctcttttggatggaacag
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G071441_T02 (Zea mays), 5'ss of exon 8
GTATAAATTTGACGATGAACGGGTCACGAAAGAAGATGTCAAAAGAGCACTGGAAGAGCAATATGGTGGTGAAGAAGAGgtagcactctc--tttcgaggttttctttattttctttgttatttttttttactgaatttactttcaaatttggtttctcttcag
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GTACAAGTTCGAGGATGAACGAGTGACGAAAGAAGACATGAAACGAGCATTGGAGGAACAATATGGTGGTGAAGAAGAGgtaatacatgcagacactaaacttcttcaattagcttgggtacataac---atttatctttgttgcag-----------------
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G551402_T02 (Zea mays), 5'ss of exon 6
GTATAAATTTGACGATGAACGGGTCACGAAAGAAGATGTCAAAAGAGCACTGGAAGAGCAATATGGTGGTGAAGAAGAGgtagcactctctttcgaggttttctttattttctttgttatttttt----tttactgaatttactt-tcaaatttg-----gtttctcttcag----------
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GTATAAATTTGATGATGAACGTGTAACAAAAGAAGATGCTAAGAAGGCTCTTGAAGAACAATATGGGGGTGATGAAGAGgtaa-gttctattt---gtttttttttattcaaggataaattctgtgaagtctacctcatctacttatcaccatcgtctatgtttctcttttggattaaacag
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 10
GTATAAATTTGACGATGAACGGGTCACGAAAGAAGATGTCAAAAGAGCACTGGAAGAGCAATATGGTGGTGAAGAAGAGgtagcactctctttcgaggttttctttattttctttgttatttttttttactgaatttactttcaaatttggtttctcttcag
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GTATAAGTTTGACGATGAACGCGTGACAAAAGAAGAAACCAAAAGAGTTCTCGAGGAGCAATATGGTGGAGAGGAGGAAgta----tgtttcttgctaatttttgtgcgatttttgctaatgtgctgcgcag------------------------------Mapped 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|125236615|gb|EL250700.1|EL250700EST: CAATATGGTGGTGAAGAAGAG TTACCGCAGGATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAA
genomic: CAATATGGTGGTGAAGAAGAGgtagcactct ... ttctcttcagTTACCGCAGAATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATAAATTTGACGATGAACGGGTCACGAAAGAAGATGTCAAAAGAGCACTGGAAGAGCAATATGGTGGTGAAGAAGAGgtagcactctctttcgaggttttctttattttctttgttatttttttttactgaatttactttcaaatttggtttctcttcag
- - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG