Sequence
atgc intronic sequence ATGC exonic sequenceGTATAAATTTGATGATGAACGAGTAACCAAGGAAGATTTGAAAAGGGCTTTGGAGGAGCAATATGGTGGTGAAGAAGAGgttttattttcttgctccattttccatgatttgaaccccaatcctaattcctctagcctgacatatttgctttcgtgtcttttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G06600.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G06600.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 5'ss of exon 12
GTATAAATTTGATGATGAACGAGTAACCAAGGAAGATTTGAAAAGGGCTTTGGAGGAGCAATATGGTGGTGAAGAAGAGgttttattttct-tgctccattttccatgatttgaaccccaatcct--------------aattcctctagcctgacatatttgctttcgtgtcttttcag-------------------
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GTATAAATTTGATGATGAACGAGTAACAAAAGAAGATACCAAAAAAGCCCTTGAAGAGCAGTATGGGGGTGAAGAAGAGgtcgtttttactattaataactgttcattaagtgcaattcactgatttagtggttgcagcaatttccctcatcttgtatttatgtcatcatcttatttgtttctcttttggatggaacag
upper sequence: AT5G06600.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 5'ss of exon 12
GTATAAATTTGATGATGAACGAGTAACCAAGGAAGATTTGAAAAGGGCTTTGGAGGAGCAATATGGTGGTGAAGAAGAGgttttattttcttgctccattttccatgatttgaaccccaatcctaattcctctagcctgacatatttgctttcgtgtcttttcag
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GTACAAGTTTGATGATGAACGAGTGACAAAAGAAGACATGAAGCGGGCATTAGAGGAGCAATACGGTGGCGAGGAAGAGgtat-atacacaca-tgaacactggaagccccaagtcggccttttacttctattagttttattaatgtcttttttttctgttacag
upper sequence: AT5G06600.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G071441_T02 (Zea mays), 5'ss of exon 8
GTATAAATTTGATGATGAACGAGTAACCAAGGAAGATTTGAAAAGGGCTTTGGAGGAGCAATATGGTGGTGAAGAAGAGgttttattttcttgctccattttccatgatttgaaccccaatcctaattcctctagcctgacatatttgctttcgtgtcttttcag
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GTACAAGTTCGAGGATGAACGAGTGACGAAAGAAGACATGAAACGAGCATTGGAGGAACAATATGGTGGTGAAGAAGAGgtaatacatgcagacactaaacttcttcaattagcttgggtacataacatttatc-tttgttgcag--------------------
upper sequence: AT5G06600.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G551402_T02 (Zea mays), 5'ss of exon 6
GTATAAATTTGATGATGAACGAGTAACCAAGGAAGATTTGAAAAGGGCTTTGGAGGAGCAATATGGTGGTGAAGAAGAGgttttattttcttgctccatttt--ccatgatttgaacccc--aatcctaattcctctagcctgacatatttgctttcgtgtcttttcag----------
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GTATAAATTTGATGATGAACGTGTAACAAAAGAAGATGCTAAGAAGGCTCTTGAAGAACAATATGGGGGTGATGAAGAGgtaagttctatttgtttttttttattcaaggataaattctgtgaagtctacctcatcta-cttatcaccatcgtctatgtttctcttttggattaaacagMapped 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|125135656|gb|EL175858.1|EL175858EST: AGCAATATGGTGGTGAAGAAGAG CTACCACAGACTAATCCTGGTTTCAATAATAACCCTCCTTTCAAATTCACA
genomic: AGCAATATGGTGGTGAAGAAGAGgttttatttt ... gtcttttcagCTACCACAGACTAATCCTGGTTTCAATAATAACCCTCCTTTCAAATTCACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATAAATTTGATGATGAACGAGTAACCAAGGAAGATTTGAAAAGGGCTTTGGAGGAGCAATATGGTGGTGAAGAAGAGgttttattttcttgctccattttccatgatttgaaccccaatcctaattcctctagcctgacatatttgctttcgtgtcttttcag
- - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG