Sequence
atgc intronic sequence ATGC exonic sequenceGTTGCTTTTCAAGAAGCAGACTTTACTGGCTGGAATATATGGGCAGCTATAAATAACCGACCTTTATTACCATTCAGgtaaaactaatagactttttactgatctgtgtattgaaaacagaagtttaagctctgtttaatcttgtttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G08740.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G08740.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os06g11140.1 (Oryza sativa), 5'ss of exon 9
GTTGCTTTTCAAGAAGCAGACTTTACTGGCTGGAATATATGGGCAGCTATAAATAACCGACCTTTATTACCATTCAGg--taaaactaatagactttttactgatctgtgtattgaaaac-----agaagtttaagctctgttt-aat-cttgtttgcag-------------------------------------------------------------
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GTTGCTTTTCAACAAGCAGATTTTGCTGGATGGAATCTCTGGGCAGCAATCAATGACCGACCTCTTCTGCCATTCAGgtttaaatctagctgaactgtctatg-ttgacgtattcaggattactaaggattttcatttcttttttaatgctaatgttctgtcatgtctgtaggaatagttgaacttcatagaagagctaaatatcctgtgtaacttttcag
upper sequence: AT5G08740.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv07s0031g02690.t01 (Vitis vinifera), 5'ss of exon 9
GTTGCTTTTCAAGAAGCAGACTTTACTGGCTGGAATATATGGGCAGCTATAAATAACCGACCTTTATTACCATTCAGgtaaaactaatagactttttactgatctgtgtattgaaaacagaagtttaagctctgtttaatctt-----gtttgcag------------------------
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GTTGCTTTTCAGCAAGCAGACTTTGCTGGTTGGAATCTGTGGGCAGCAATCAATGACCGTCCTTTACTGCCATTTAGgttggaaactcaaacactttcctcaatagtattatataacta---atttaatttttcattactcgtaaaaagtctgcaatatttccaagataaatgtaggaagMapped 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|86087425|gb|DR383184.1|DR383184EST: GGCTGGAATATATGGGCAGCTATAAATAACCGACCTTTATTACCATTCAG GTTTCAGAACCTAGGTGAGATGATGACTCTTGGAAGATATGATGCTGCTAT
genomic: GGCTGGAATATATGGGCAGCTATAAATAACCGACCTTTATTACCATTCAGgtaaaactaa ... ttgtttgcagGTTTCAGAACCTAGGTGAGATGATGACTCTTGGAAGATATGATGCTGCTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGCTTTTCAAGAAGCAGACTTTACTGGCTGGAATATATGGGCAGCTATAAATAACCGACCTTTATTACCATTCAGgtaaaactaatagactttttactgatctgtgtattgaaaacagaagtttaagctctgtttaatcttgtttgcag
- - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - GCAGCT