Sequence
atgc intronic sequence ATGC exonic sequenceATATTCTTGGATATGGCAGTTTTGGTTGATGCACAAGGAGAAATGCTTGACAATATAGAATCTCAGgtaatttggtactttttctacaatagagtcgttacctttcaaaaactaagtagtctaaagatcaaggcactgtaatagtacatactgatgggatttgtggcaaatatag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G08080.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G08080.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os07g07000.1 (Oryza sativa), 5'ss of exon 11
ATATTCTTGGATATGGCAGTTTTGGTTGATGCACAAGGAGAAATGCTTGACAATATAGAATCTCAGgtaatttggtactttttctacaatagagtcgttac-ctttcaaaaactaagtagtctaaagatcaaggcactgtaatagtacatactgatgggatttgtggcaaatatag
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ATATTCATGGATATGGCAGTTTTGGTTGATGCTCAAGGAGACATGATCAACAACATAGAGACACATgtaagaattgcccactcttgcaccaagttatacatgttcttggaagcaagacaaactgtatatcac--caagaattcaccttattttcgttttctctgcttcaag-----
upper sequence: AT5G08080.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv08s0032g00440.t01 (Vitis vinifera), 5'ss of exon 12
ATATTCTTGGATATGGCAGTTTTGGTTGATGCACAAGGAGAAATGCTTGACAATATAGAATCTCAGgta-atttggtactttttctacaatagagtcgttacctttcaaaa--actaagtagtctaaagatcaagg--cactgtaatag-tacatactgatgggatttgtggcaaatatag
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ATATTCTTAGATATGGCGGTGTTGGTAGATGCACAGGGGGACATGCTTGACAATATAGAATCACAGgtatggaagagaaaattcctttggtatggtttctgcttgtgaaaagtacctaagagttaagtagtatgtgttcatagtcataaataagtccaaattccactttgggcag------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|125099178|gb|EL155075.1|EL155075EST: CAGTTTTGGTTGATGCACAAGGAGAAATGCTTGACAATATAGAATCTCAG GTGTCAAGTGCAGTAGATCACGTGCAATCGGGAAA
genomic: CAGTTTTGGTTGATGCACAAGGAGAAATGCTTGACAATATAGAATCTCAGgtaatttggt ... gcaaatatagGTGTCAAGTGCAGTAGATCACGTGCAATCGGGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATTCTTGGATATGGCAGTTTTGGTTGATGCACAAGGAGAAATGCTTGACAATATAGAATCTCAGgtaatttggtactttttctacaatagagtcgttacctttcaaaaactaagtagtctaaagatcaaggcactgtaatagtacatactgatgggatttgtggcaaatatag
- - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - GGAGAA