Sequence
atgc intronic sequence ATGC exonic sequenceTTGTAATATTGGAGAAGATGGTGTAGCCCTTGCTGAAGCAGTTCACGGTTCTGCACCTGATATCGCTGGAAAGgttggtccttcaaacaatatatcattccaatttcatcatttacgggctaaagagtatcatttatgcatccaatgttgaaagattaatatgtgtgatttttaaatttgttgttgtctttctgttttgggtgatgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G03290.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G03290.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os01g16900.3 (Oryza sativa), 5'ss of exon 8
TTGTAATATTGGAGAAGATGGTGTAGCCCTTGCTGAAGCAGTTCACGGTTCTGCACCTGATATCGCTGGAAAGgttggtccttcaaacaatatatcattccaatttcatcatttacgggctaaagagtatca-tttatgcatccaatgttgaaagattaatatgtgtgatttttaaatttgttgttgtctttctgttttgggtgatgtag
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CTGCAACATTGGTGAAGGTGGCATTTGTCTGGCAGAAGCTGTTCACGGTTCTGCTCCTGATATTGCTGGCAAGgtgagtt----agaca-tgaacaattcctgcttcatagctt--gatttacgatgtttcaacctattta---aatttcctagtacttgtagagtcagttgtatcacttgat---------------------------
upper sequence: AT5G03290.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv08s0040g01700.t01 (Vitis vinifera), 5'ss of exon 6
TTGTAATATTGGAGAAGATGGTGTAGCCCTTGCTGAAGCAGTTCACGGTTCTGCACCTGATATCGCTGGAAAGgttggtccttcaaacaatatatcattccaatttcatcatttacgggctaaagagtatcatttatgcatccaatgttgaaagattaat--atgtgtgatttttaaatttgttgttgtctttctgttttgggtgatgtag
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CTGCAATATTGGAGAGGGAGGTATTGCTCTTGCTGAAGCCGTTCATGGTTCTGCACCAGATATTGCTGGAAAGgttagtcactaaagctac-------------tgtatgatttttggtctcgtgt---tcactcatgccttgtgttgctacatatccatgcatctatgttcattaacttcattcatgc----------------------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|124744265|gb|EH835427.1|EH835427EST: TAGCCCTTGCTGAAGCAGTTCACGGTTCTGCACCTGATATCGCTGGAAAG AACTTGGCGAACCC
genomic: TAGCCCTTGCTGAAGCAGTTCACGGTTCTGCACCTGATATCGCTGGAAAGgttggtcctt ... ggtgatgtagAACTTGGCGAACCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGTAATATTGGAGAAGATGGTGTAGCCCTTGCTGAAGCAGTTCACGGTTCTGCACCTGATATCGCTGGAAAGgttggtccttcaaacaatatatcattccaatttcatcatttacgggctaaagagtatcatttatgcatccaatgttgaaagattaatatgtgtgatttttaaatttgttgttgtctttctgttttgggtgatgtag
- - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA