Sequence
atgc intronic sequence ATGC exonic sequenceGTTGGAGCGGATATAGTTAAAAGAGCACTAAGTTACCCCCTAAAACTAATCGCCAAGAATGCTGGTGTTAATGGAAGTGTAGTTAGCGAGAAGgtaataacaacagataacataattcccacttttttatctctagatttcaagtcagatgcttgaagagatgtctctattcattggcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G55490.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G55490.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 5'ss of exon 12
GTTGGAGCGGATATAGTTAAAAGAGCACTAAGTTACCCCCTAAAACTAATCGCCAAGAATGCTGGTGTTAATGGAAGTGTAGTTAGCGAGAAGgt--aataacaacagataacataattcccacttttttatctctagatttcaagtcagatgcttgaagagatgtctctattcattggcag
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GTTGGAGCTGAAATTGTAAGGAGAGCGCTGAGCTACCCGCTTAAATTGATTGCTAAGAATGCTGGTGTTAATGGAAGCGTTGTTACCGAGAAGgttagatcttgttcactaacagaaaatc-atatgttcacatgtacatctgaa-taacataaaagatgatgttttaccag----------
upper sequence: AT1G55490.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA08G18760.1 (Glycine max), 5'ss of exon 11
GTTGGAGCGGATATAGTTAAAAGAGCACTAAGTTACCCCCTAAAACTAATCGCCAAGAATGCTGGTGTTAATGGAAGTGTAGTTAGCGAGAAGgtaataacaacagataacataattcccacttttttatctctagatttcaagtcagatgcttgaagagatgtctctattcattggcag
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GTTGGAGCTGATATTGTGAAAAGAGCTCTTAGTTACCCTTTGAAATTAATTGCCAAGAATGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAGgtatcaa----ggtttagtctatgtagaatttctcttttct---ctacgagcgtggt-tgtgatgatgtgacttgtgttgtaattag
upper sequence: AT1G55490.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA08G18760.3 (Glycine max), 5'ss of exon 11
GTTGGAGCGGATATAGTTAAAAGAGCACTAAGTTACCCCCTAAAACTAATCGCCAAGAATGCTGGTGTTAATGGAAGTGTAGTTAGCGAGAAGgtaataacaacagataacataattcccacttttttatctctagatttcaagtcagatgcttgaagagatgtctctattcattggcag
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-------CTGATATTGTGAAAAGAGCTCTTAGTTACCCTTTGAAATTAATTGCCAAGAATGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAGgtatcaa----ggtttagtctatgtagaatttctcttttct---ctacgagcgtggt-tgtgatgatgtgacttgtgttgtaattag
upper sequence: AT1G55490.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 12
GTTGGAGCGGATATAGTTAAAAGAGCACTAAGTTACCCCCTAAAACTAATCGCCAAGAATGCTGGTGTTAATGGAAGTGTAGTTAGCGAGAAGgtaataacaac-agataacataattcccacttttttatctctagatttcaagtcagatgcttgaagagatgtctctattcattggcag
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GTTGGAGCTGATATTGTCAAGAGAGCTTTGAGTTACCCTCTGAAGTTAATTGCCAAAAATGCTGGTGTTAATGGAAGTGTGGTCAGTGAGAAGgtataatcaatgagtttccaggaggtccatgatctctgtttcatgatgtatatgtgttgaccaaatgggagctttt--tcag------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|86087081|gb|DR382840.1|DR382840EST: AACTAATCGCCAAGAATGCTGGTGTTAATGGAAGTGTAGTTAGCGAGAAG GTGCTTTCCAACGATAACGTGAAATTCGGTTACAATGCTGCAACCGGCAAG
genomic: AACTAATCGCCAAGAATGCTGGTGTTAATGGAAGTGTAGTTAGCGAGAAGgtaataacaa ... tcattggcagGTGCTTTCCAACGATAACGTGAAATTCGGTTACAATGCTGCAACCGGCAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGGAGCGGATATAGTTAAAAGAGCACTAAGTTACCCCCTAAAACTAATCGCCAAGAATGCTGGTGTTAATGGAAGTGTAGTTAGCGAGAAGgtaataacaacagataacataattcccacttttttatctctagatttcaagtcagatgcttgaagagatgtctctattcattggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG