Sequence
atgc intronic sequence ATGC exonic sequenceGGCATTCTATGGGTGGTTTTGTTGCTAGAGCTGCTGCAGTCCATCCTCGTTTGCGGAAATCAGCTGTGCAAACCATTCTAACACTCTCAAGTCCACACCAgtaagttttctccaaacttaacaagttttactcgccaaacaacatggtttgggtttttatgtatctaatttcatccag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G27325.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G27325.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os09g09360.1 (Oryza sativa), 5'ss of exon 3
GGCATTCTATGGGTGGTTTTGTTGCTAGAGCTGCTGCAGTCCATCCTCGTTTGCGGAAATCAGCTGTGCAAACCATTCTAACACTCTCAAGTCCACACCAgta--agttttctccaaacttaacaagttt-----tactcgccaaacaacatg---gtttgggtt-tttatgtatctaatt-tcatccag----------
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GACATTCCATGGGTGGTTTTGTGGCTCGAGCAGCTCTTGTCCATCCAGGCTTAAGGAAATCGGCTGTGGAAACCATACTGACACTCTCCAGTCCACATCAgtactatctctctctctgcctatctctcctctgtgtgtgtgtgtgtgtacacgcgtgcgtgcgtggtttgtgtgtgtgcttgtcgtgcgtgcgcaggtgg
upper sequence: AT3G27325.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv13s0047g01150.t01 (Vitis vinifera), 5'ss of exon 4
GGCATTCTATGGGTGGTTTTGTTGCTAGAGCTGCTGCAGTCCATCCTCGTTTGCGGAAATCAGCTGTGCAAACCATTCTAACACTCTCAAGTCCACACCAgtaagttttctccaaacttaacaagttttact-------cgccaaacaacatggtttgggt---ttttatg----tatctaatttcatccag
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GTCACTCTATGGGTGGTTTTGTTGCTAGAGCTGCAATTGTCCACCCACATTTAAGAAAGTCAGCAGTTGAAACAGTTCTTACACTTTCAAGCCCACACCAgtgagatatatggcttcttgattgacttcactgtggtttccagaaatattatggattggttattttttatgagatttccctgttttttccagMapped 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|116456274|gb|EG498866.1|EG498866EST: CATTCTAACACTCTCAAGTCCACACCA ATCACCTCCTCTGGCATTGCAGCCATCCTTGGGGCATTACTTTGCTCAAGT
genomic: CATTCTAACACTCTCAAGTCCACACCAgtaagttttc ... tttcatccagATCACCTCCTCTGGCATTGCAGCCATCCTTGGGGCATTACTTTGCTCAAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCATTCTATGGGTGGTTTTGTTGCTAGAGCTGCTGCAGTCCATCCTCGTTTGCGGAAATCAGCTGTGCAAACCATTCTAACACTCTCAAGTCCACACCAgtaagttttctccaaacttaacaagttttactcgccaaacaacatggtttgggtttttatgtatctaatttcatccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG