Sequence
atgc intronic sequence ATGC exonic sequenceCTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTGGTCTGCATGGAGTGCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAGgtcagacattttctacttatttgggaataataatattaggctaggaagatttagttcgatgggtaaggataacataaactgccaataagtaagtcctttg...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G63690.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G63690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os02g57710.1 (Oryza sativa), 5'ss of exon 5
CTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTGGTCTGCATGGAGTGCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAGgtcagacattttctacttatttgggaataataatattaggctaggaagatttagttcgatgggtaaggataacataaactgccaataagtaagtcctttg
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GTTTTTGTGGCTTATGGCTGTTGGTACCATTCTTTGTGCATCATACTGGTCAGCATGGAGTGCTCGAGAAGCAGTTATTGAACAAGAGAAGCTTCTAAAGgttctgaacagaa-gcttatttg--------actattgttctgg----attttgtttgcttgaaaag---agaactaacagtcatttggtttatgtag--
upper sequence: AT1G63690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G096343_T01 (Zea mays), 5'ss of exon 5
CTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTGGTCTGCATGGAGTGCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAGgtcagacattttcta-cttatttgggaataataatattaggctaggaagatttagttcgatgggtaaggataacataaactgccaataagtaagtcctttg
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GTTTCTGTGGCTTATGGCAGTTGGTACCATTCTTTGTGCATCATACTGGTCAGCATGGAGTGCCCGAGAAGCAGATATTGAACAAGAGAAGCTTCTGAAGgttctaaaccccaaatcttgtttg--atttctattgctagttttgcgtacttgaaa--aaaagggactgacaggttcaa-tacttgttag-----------
upper sequence: AT1G63690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G02540.1 (Glycine max), 5'ss of exon 5
CTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTGGTCTGCATGGAGTGCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAGgtcagacattttctacttatttgggaataa-taatattaggctaggaagatttagttcgatgggtaag-gataacataaactgccaataagtaagtcctttg-----
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ATTTCTTTGGATGATGGCAGTTCTTACAATATTGTGTGCATCATATTGGTCAGCTTGGACAACCCGAGAAGCAGCTATTGAACAGGATAAGCTACTAAAGgt-atgtttttcctattcttttagtattttctcaagttggattctcatttcttttcttaatatgttgttgatgctactacttactgttaattttttcttttttatag
upper sequence: AT1G63690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G20390.1 (Glycine max), 5'ss of exon 4
CTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTGGTCTGCATGGAGTGCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAGgtcag---acattttctacttatttgggaat-aataatattaggctaggaagatttagttcgatgggtaag-gataacataaactgccaataagtaagtcctttg------
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ATTTCTTTGGATGATGGCAGTTCTTACCATATTGTGTGCATCATATTGGTCAGCTTGGACGACCCGAGAAGCAGCTATTGAACAGGATAAGTTGCTAAAGgtctgtttaattttcctattcatttagtatttactcaagttggattttcatttcttttcttaatatgttgtcgattctactacttactctcatttttttcttttcttatag
upper sequence: AT1G63690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA01G42940.1 (Glycine max), 5'ss of exon 5
CTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTGGTCTGCATGGAGTGCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAGgtcagacattttctacttatttgggaataa-taatattaggctaggaagatttagttcgatgggtaag-gataacataaactgccaataagtaagtcctttg------
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ATTTCTTTGGATGATGGCAGTTCTTACCATATTGTGTGCATCATATTGGTCAGCTTGGACGACCCGAGAAGCAGCTATTGAACAGGATAAGTTGCTAAAGgtctgtt-tttcctattcatttagtatttactcaagttggattttcatttcttttcttaatatgttgtcgattctactacttactctcatttttttcttttcttatagMapped 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|163967205|gb|ES021744.1|ES021744EST: GCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAG GATGCTATAGATGAAATCCCTAACACAAATGATGGGGGTAGTGGTGTTGTA
genomic: GCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAGgtcagacatt ... acaaatgtagGATGCTATAGATGAAATCCCTAACACAAATGATGGGGGTAGTGGTGTTGTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTGGTCTGCATGGAGTGCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAGgtcagacattttctacttatttgggaataataatattaggctaggaagatttagttcgatgggtaaggataacataaactgccaataagtaagtcctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaggataa