Sequence
atgc intronic sequence ATGC exonic sequenceGCAGTTGAAAGACAAAGTTCTTCGCACTTATGCTGAGATGGAGAATGTCATGGACAGAACAAGACGTGATGCTGAAAACACCAAAAAGTATGCCGTACAGgttagtctttaagaacttggtttgcagcttttgtttcatataatagttttctgaaatatatatattcactatatatgtatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G26780.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G26780.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G002440_T01 (Zea mays), 5'ss of exon 2
GCAGTTGAAAGACAAAGTTCTTCGCACTTATGCTGAGATGGAGAATGTCATGGACAGAACAAGACGTGATGCTGAAAACACCAAAAAGTATGCCGTACAGgttag-------tctttaagaacttggtttgcagcttttgtttcatataatagttttctgaaatatatatattcactatatatgtatgcag----------
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AGATATGAAGGATAAGGTCCTACGCAGCTATGCTGAGATGGAGAATGTCCTTGCCAGAACAAAGCGTGAGTCAGAGAACACCAAGAAGTATGCCATACAGgttcgcgcatcatatttactcgtttggtttgtaggtttt-tattgtacaaggatttgataatatttgtctgtctctgaaacatgctcacacttgatggttc
upper sequence: AT4G26780.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA18G10120.1 (Glycine max), 5'ss of exon 3
GCAGTTGAAAGACAAAGTTCTTCGCACTTATGCTGAGATGGAGAATGTCATGGACAGAACAAGACGTGATGCTGAAAACACCAAAAAGTATGCCGTACAGgttagtctttaagaacttggtttgcagcttttgtttcatataatagttttctgaaatatat-atattcactatatatgtatgcag-----------------------------
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GAAAATGCAGGATAAAGTTCTGCGAACTTATGCAGAGATGGAGAATGTCATGGATAGGACAAGACGTGAAGCAGAGAATTCGAAAAAATTTGCTATACAGgtctgagttttggcctttgtct---aattcttattttgtgattcagccctcttgcccttgtcatgtgcttttcggttttgtgctgagtggtttcaattttctaatttgatgtag
upper sequence: AT4G26780.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G46390.2 (Glycine max), 5'ss of exon 4
GCAGTTGAAAGACAAAGTTCTTCGCACTTATGCTGAGATGGAGAATGTCATGGACAGAACAAGACGTGATGCTGAAAACACCAAAAAGTATGCCGTACAGgttagtctttaagaacttggtttgcagcttttgtttcatataatagttttctgaaatatatatattcactatatatgtatgcag
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AAAAATGCAGGATAAAGTTCTGCGTACTTATGCAGAGATGGAGAATGTCATGGAAAGGACTAGACGTGAAGCAGATAATTCAAAAAAATTTGCTTTACAGgtctaaatttgatcccttttgtcccaaataatttcctcttcaactttgctctgagtgctttaagtatgctgtag----------
upper sequence: AT4G26780.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G43430.1 (Glycine max), 5'ss of exon 3
GCAGTTGAAAGACAAAGTTCTTCGCACTTATGCTGAGATGGAGAATGTCATGGACAGAACAAGACGTGATGCTGAAAACACCAAAAAGTATGCCGTACAGgttagtctttaagaacttggtttgcagcttttgtttcat-ataatagttttctgaaatatatatattcactatatatgtatgcag---------------------------------------
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GAAAATGCAGGATAAAGTTCTGCGAACTTATGCAGAGATGGAGAATGTCATGGATAGGACACGACGCGAAGCGGAGAATTCGAAAAAATTTGCTATACAGgtttgagttttggccgttgtct---aattcttattttgtgattcaggtctcttggctcttgctcccttgtcatgtgctttt-cagttttgtgctgagtggtttcaaatttcaaatttgatgtagMapped 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|164060877|gb|ES151904.1|ES151904EST: GGACAGAACAAGACGTGATGCTGAAAACACCAAAAAAGTATGCCGTACAG AATTTTGCAAAGAGCCTATTGGATGTGGCGGATAATCTTGGAAGAGCTTCT
genomic: GGACAGAACAAGACGTGATGCTGAAAACACC-AAAAAGTATGCCGTACAGgttagtcttt ... atgtatgcagAATTTTGCAAAGAGCCTATTGGATGTGGCGGATAATCTTGGAAGAGCTTCT
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 |
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GCAGTTGAAAGACAAAGTTCTTCGCACTTATGCTGAGATGGAGAATGTCATGGACAGAACAAGACGTGATGCTGAAAACACCAAAAAGTATGCCGTACAGgttagtctttaagaacttggtttgcagcttttgtttcatataatagttttctgaaatatatatattcactatatatgtatgcag
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