Sequence
atgc intronic sequence ATGC exonic sequenceGGTTTTAGGAAACAAATTCTTTGTCACTCCTTCAGACTCTGTAGCTATCATCGCAGCCAATGCACAAGAAGCAATTCCATATTTCCGTGCTGGTCCTAAGgtgggattgctttggataaaatgaagttcactatttaattttagatatagtgccgtttaaacttactggatgcaatcttgttctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G51820.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: LOC_Os10g11140.2 (Oryza sativa), 5'ss of exon 14
GGTTTTAGGAAACAAATTCTTTGTCACTCCTTCAGACTCTGTAGCTATCATCGCAGCCAATGCACAAGAAGCAATTCCATATTTCCGTGCTGGTCCTAAGgtgggattgctttggataaaatgaagttcact---atttaattttagatatagtgccgtttaaacttac----tggatgcaatcttgttctcag
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GATTCTTGGAAGAAGGTTCTTTGTTACACCATCAGACTCTGTTGCAATAATTGCAGCGAATGCACAGGCAGCAATTCCTTATTTCCAATCTGGTCCAAAAgtaatgagatgttacacattataatgtttttctaaataggatattagactcatcaaagacaagaatgatctcttatgtttgatactttcttcag
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA10G38590.1 (Glycine max), 5'ss of exon 14
GGTTTTAGGAAACAAATTCTTTGTCACTCCTTCAGACTCTGTAGCTATCATCGCAGCCAATGCACAAGAAGCAATTCCATATTTCCGTGCTGGTCCTAAGgtgggattgctttggataaaatgaagttcactatttaattttagatata-gtgccgtttaaacttactggatgcaatcttgttctcag
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GATTTTAGGAAGAAGTTTCTTTGTAACTCCTTCAGACTCTGTAGCAGTTATTGCAGCCAATGCAAGAGAAGCGATTCCATACTTCAAGAACGGTGTTAAGgttgaaat-ttgtgcacacatttaggt--attcatcattgtaaaatagaagtgaagtgccattattctgtat-----tttaattgcag
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA20G29230.1 (Glycine max), 5'ss of exon 14
GGTTTTAGGAAACAAATTCTTTGTCACTCCTTCAGACTCTGTAGCTATCATCGCAGCCAATGCACAAGAAGCAATTCCATATTTCCGTGCTGGTCCTAAGgtgggattgctttggataaaatgaagt--tcactatttaattttagatatagtgccgtttaaacttactggatgcaatcttgttctcag
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GATTTTAGGAAGAAGTTTCTTTGTAACTCCTTCAGACTCGGTAGCAGTTATTGCAGCCAATGCAAGAGAAGCGGTTCCATACTTCAAGAATGGTGTTAAGgttgaaattttatgcacacgtttaggtattcatcattttaaaacagaagtgccattattctgtatt-ttaattgcag------------
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: EFJ32824 (Selaginella moellendorffii), 5'ss of exon 13
GGTTTTAGGAAACAAATTCTTTGTCACTCCTTCAGACTCTGTAGCTATCATCGCAGCCAATGCACAAGAAGCAATTCCATATTTCCGTGCTGGTCCTAAGgtgggattgctttggataaaatgaagttcactatttaattttagatatagtgccgtttaaacttactggatgcaatcttgttctcag
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GATCCTAGGCAACAATTTCTTTGTCACTCCTTCGGACTCTGTTGCCATGATTGCAGCCAATGCTCAGCCATGCATTCCATACTTCAAGAAGGGAATAAAGgtttgctgatttttggtaactttaga--gagtacttattctcatcatttctacttctacag--------------------------
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: EFJ34621 (Selaginella moellendorffii), 5'ss of exon 13
GGTTTTAGGAAACAAATTCTTTGTCACTCCTTCAGACTCTGTAGCTATCATCGCAGCCAATGCACAAGAAGCAATTCCATATTTCCGTGCTGGTCCTAAGgtgggattgctttggataaaatgaagttcactatttaattttagatatagtgccgtttaaacttactggatgcaatcttgttctcag
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GATCCTAGGCAACAATTTCTTTGTCACTCCTTCGGACTCTGTTGCCATGATTGCAGCCAATGCTCAGCCATGCATTCCATACTTCAAGAAGGGAATAAAGgtatgctgaattttggtaactttaga--gagtacttattctcattgtttctacttctacag--------------------------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|124804767|gb|EH892366.1|EH892366EST: TCGCAGCCAATGCACAAGAAGCAATTCCATATTTCCGTGCTGGTCCTAAG GGGCTGACACGTTCTATGCCGACAAGTGGTGCTCTTGA
genomic: TCGCAGCCAATGCACAAGAAGCAATTCCATATTTCCGTGCTGGTCCTAAGgtgggattgc ... ttgttctcagGGGCTGGCACGTTCTATGCCGACAAGTGGTGCTCTTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTTTTAGGAAACAAATTCTTTGTCACTCCTTCAGACTCTGTAGCTATCATCGCAGCCAATGCACAAGAAGCAATTCCATATTTCCGTGCTGGTCCTAAGgtgggattgctttggataaaatgaagttcactatttaattttagatatagtgccgtttaaacttactggatgcaatcttgttctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA