Sequence
atgc intronic sequence ATGC exonic sequenceCTTCAACGGAGAATGAAGATTGCTGAGCTGAAGCAGGTTTCCGCTAGGCCTGATGTTGTTGAGgtatggatgcttctctattgtgttcatagtaccaaggtttatctcgttgtgtagatatctattgtatattcataagttctgttttacaattttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G21660.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA07G31350.1 (Glycine max), 5'ss of exon 2
CTTCAACGGAGAATGAAGATTGCTGAGCTGAAGCAGGTTTCCGCTAGGCCTGATGTTGTTGAGgtatggatgcttctctattgtgttcatagtaccaaggttt---atctcgttgtgtagatatcta-ttgtatattcataagttctgttttacaattttcag-
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CTTCAACGCCAGATGAAGATTGCAGAACTGAAACAGATTTTCTCTAGGCCTGATGTTGTTGAGgttggaatattttt-tgtagtatacgtagttttgtacttttgtgctttcattcctaaatttctagtcttatggtcattattttaacactttattttttcac
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA13G25110.2 (Glycine max), 5'ss of exon 4
CTTCAACGGAGAATGAAGATTGCTGAGCTGAAGCAGGTTTCCGCTAGGCCTGATGTTGTTGAGgtatggatgcttctctattgtgttcatagtaccaaggtt---tatctcgttgtgtagatatctattgta--------tattcataagttctgttttacaattttcag-
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CTTCAACGCCGGATGAAGATTGCAGAACTGAAACAGATTTGCTCCAGGCCTGATGTTGTTGAGgttggaatattt-tgtgtcgtatacgtagttttgaacttgtgtgccttcattcctatctttctagtctggtggtcattattttaacactttattttttcacttttaagMapped 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|301501195|gb|HO206735.1|HO206735EST: TGAAGATTGCTGAGCTGAAGCAGGTTTCCGCTAGGCCTGATGTTGTTGAG GTCTGGGACGCGACTTCAGCAGATCCAAAGCTGTTAGTGTTTTTGAAGTCG
genomic: TGAAGATTGCTGAGCTGAAGCAGGTTTCCGCTAGGCCTGATGTTGTTGAGgtatggatgc ... caattttcagGTCTGGGACGCGACTTCAGCAGATCCAAAGCTGTTAGTGTTTTTGAAGTCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTCAACGGAGAATGAAGATTGCTGAGCTGAAGCAGGTTTCCGCTAGGCCTGATGTTGTTGAGgtatggatgcttctctattgtgttcatagtaccaaggtttatctcgttgtgtagatatctattgtatattcataagttctgttttacaattttcag
- - - - - - TGAAGA
- - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - TGAAGC