Sequence
atgc intronic sequence ATGC exonic sequenceGTCAAATTCACAAAGAGCTCGTAGTCAGCTTTTCGAGACACATCTTGCAAAACTGTTCAAGCAAAAAGTAGAAATATTCACCAAGGTTGAATTTACCCAGgtaaaaacgaaagaggttcccttatagttatatcaaacgcgcactgccacacgctcatcatctcctgatctcttttcgtgctaaatatttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G02030.2 |
intron # | 20 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G02030.2 (Arabidopsis thaliana), 5'ss of exon 20
lower sequence: GLYMA02G01610.1 (Glycine max), 5'ss of exon 19
GTCAAATTCACAAAGAGCTCGTAGTCAGCTTTTCGAGACACATCTTGCAAAACTGTTCAAGCAAAAAGTAGAAATATTCACCAAGGTTGAATTTACCCAGgtaaaaacgaaagaggttcccttatagttatatcaaacgcgcactgccacacgctcatcatctcctgatctcttttcgtgctaaatatttgcag
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GTCAAATACTCAAAGGGCAAGGAGCCAGCTTTTCGAAACGCATCTAGCAAAATTGTTTAAGCAGAAAGTTGAAATTTTCACAAAAGTAGAATATACACAGgtattgt-----gtgattattatattggtgatttgaatttaaataattcgttgggagccat-----gatatcgtttccttacaaat---cgcag
upper sequence: AT4G02030.2 (Arabidopsis thaliana), 5'ss of exon 20
lower sequence: GLYMA10G01660.1 (Glycine max), 5'ss of exon 19
GTCAAATTCACAAAGAGCTCGTAGTCAGCTTTTCGAGACACATCTTGCAAAACTGTTCAAGCAAAAAGTAGAAATATTCACCAAGGTTGAATTTACCCAGgtaaaaacgaaagaggttcccttatagttatatcaaacgcgcactgccacacgctcatcatctcctgatctcttttcgtgctaaatatttgcag
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GTCAAATACTCAAAGGGCAAGGAGCCAGCTTTTGGAAACGCATCTTGCAAAATTGTTTAAGCAGAAAGTTGAAATTTTCACAAAAGTAGAATATACACAGgtatgtatga------ttattatattggtgatttaaatttaaataattctttgagagccgtgat---atcattttccttacgaa----tcgcagMapped 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|19743027|gb|AU228380.1|AU228380EST: CCAAGGTTGAATTTACCCAG GAATCCGTTGTTACAACAACAGTAAAACTTTGTCTGAAGAGGTTTGCAAGA
genomic: CCAAGGTTGAATTTACCCAGgtaaaaacga ... atatttgcagGAATCCGTTGTTACAACAACAGTAAAACTTTGTCTGAAGA-GTTTGCAAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCAAATTCACAAAGAGCTCGTAGTCAGCTTTTCGAGACACATCTTGCAAAACTGTTCAAGCAAAAAGTAGAAATATTCACCAAGGTTGAATTTACCCAGgtaaaaacgaaagaggttcccttatagttatatcaaacgcgcactgccacacgctcatcatctcctgatctcttttcgtgctaaatatttgcag
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