Sequence
atgc intronic sequence ATGC exonic sequenceGGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCAAAGGCCACCTAAGgtcaaacaactttctgatatctccttatttgttgtttataagttttttattttgtttgaatgtgtcaattaagtgtactccttggccagatccttaagttgataatgttttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G01320.1 |
intron # | 22 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G01320.2 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA16G02770.1 (Glycine max), 5'ss of exon 22
GGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCAAAGGCCACCTAAGgtcaaacaactttctgatatctccttatttgttgtttataagttttttattttgtttgaatgtgtcaattaagtgtactccttggccagatccttaagttgataatgttttgcag
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GGCTTGAGTATTTTGAATCCAAGGCTTTTGAACAGCAAGAAGCTGCTCGAAATGGTACTCGAAAACCTGATGCATCAATAGCCAGCAAAGGCCATCTTAGgtatggtaaaatta----accttggcaatgtggatctgatacttcattggctaatt--gttgcatcaggaaaaacttctctcatgc---atattttatttggtgtcttt------
upper sequence: AT1G01320.2 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA07G06160.1 (Glycine max), 5'ss of exon 22
GGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCAAAGGCCACCTAAGgtcaaacaactttctgatatctccttatttgttgtttataagttttttattttgtttgaatgtgtcaattaagtgtactccttggccagatccttaagttgataatgttttgcag
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GGCTTGAGTATTTTGAGTCCAAGGCTTTTGAACAGCAAGAAGCTGCTCGAAATGGTACTCGAAAACCTGATGCATCAATAGCTAGCAAAGGCCATCTTAGgtatgataaaatt---aaccttggcaatgtggatctgata----cttcatt--ggctaattgttgcatcaggaagtacttctctcatgcatattttatttgatgtcttt------
upper sequence: AT1G01320.2 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: Vv15s0046g00740.t01 (Vitis vinifera), 5'ss of exon 22
GGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCAAAGGCCACCTAAGgtcaaacaactttctgatatctccttatttgttgtttataagttttttattttgtttgaatgtgtcaattaagtgtactccttggccagatccttaagttgataatgttttgcag
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GGCTCGAGTACTTTGAGTCAAAGGCTTTTGAACAGCAAGAAGCTGCAAGAAATGGGACTCGAAAACCTGATGCATCCATAGCCAGCAAAGGCCACCTAAGgtatgccagcattgtcct-tggcaagattgaccattc---tgcaattgatcatgcat-aagaagttgatagggtgcacagttgcccctgctattttgatgattca----------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|116396583|gb|EG439175.1|EG439175EST: AATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCAAAGGCCACCTAAG TGTTTCCGATCTACTCGACTATATCAACTCAAGTCATAACGCAAAAGGCAA
genomic: AATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCAAAGGCCACCTAAGgtcaaacaac ... tgttttgcagTGTTTCCGATCTACTCGACTATATCAACCCAAGTCATAACGCAAAAGGCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCAAAGGCCACCTAAGgtcaaacaactttctgatatctccttatttgttgtttataagttttttattttgtttgaatgtgtcaattaagtgtactccttggccagatccttaagttgataatgttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG