Sequence
atgc intronic sequence ATGC exonic sequence...catttcatttctctaggtcagctcgatggatctctcctttgtttcttatgtgtctattactgcctaaaatagcgttaatggataattttgtgatgaacagGATTCAGTTCAAGCCGACAGGGATGATCCAAACCTCCCCCTAGTAACTGCACCATTTGGACATGCCTCCCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G43690.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G43690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G30610.1 (Glycine max), 3'ss of exon 5
-catttcatttctctaggtcagctcgatggatctctcctttg-tttcttatgtgtctattactgcctaaaatagcgttaatggataattttgtgatgaacagGATTCAGTTCAAGCCGACAGGGATGATCCAAACCTCCCCCTAGTAACTGCACCATTTGGACATGCCTCCCAG
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ctatacggtcattaaatgttggggaataaaatggtaaattagacatgataaattccaatgggtaactggattgatgt--atgcaaattttgctttcctctagGACTTGGTTCAAAGTGACAGGGATGATCCCAGCCTACCACTGGTTACTGCACCTTTTGGGCATGCCTCCCAG
upper sequence: AT1G43690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G37000.1 (Glycine max), 3'ss of exon 5
-catttcattt-ctctaggtcagctcgatggatct-ctcctttgtttcttatgtgtctattactgcctaaaatagcgttaatggataattttgtgatgaac-agGATTCAGTTCAAGCCGACAGGGATGATCCAAACCTCCCCCTAGTAACTGCACCATTTGGACATGCCTCCCAG
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agacctgataaattccaagt--ggtaactgaatctgcacaaatggttattatgccttgaaaaattctcggattgatgt--atgcaatattttgctttcctctagGACTTGGTTCAAAGTGACAGGGATGATCCTAGCCTACCACTGGTTACTGCACCTTTTGGGCATGCCTCCCAGMapped 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|164156923|gb|ES084627.1|ES084627EST: GCTTTGCTGTTCCTAATTTCTGCTTTACTCTCCCGAGGACTG GATTCAGTTCAAGCCGACAGGGATGATCCAAACCTCCCCCTAGTAACTGCA
genomic: GCTTTGCTGTTCCTAATTTCTGCTTTACTCTCCCGAGGACTGgtatattgac ... tgatgaacagGATTCAGTTCAAGCCGACAGGGATGATCCAAACCTCCCCCTAGTAACTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgtgtctattactgcctaaaatagcgttaatggataattttgtgatgaacagGATTCAGTTCAAGCCGACAGGGATGATCCAAACCTCCCCCTAGTAACTGCACCATTTGGACATGCCTCCCAG
ttaatggataatttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catttcatttctctaggtcagctcgatggatctctcctttgtttcttatgtgtctattactgcctaaaatagcgttaatggataattttgtgatgaacagGATTCAGTTCAAGCCGACAGGGATGATCCAAACCTCCCCCTAGTAACTGCACCATTTGGACATGCCTCCCAG
- - - - - - - - - - - - - - - tctctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctaaaa