Sequence
atgc intronic sequence ATGC exonic sequenceATGCAGCTGCGGCTACTATGATCCTCTCTGGAATGGAAGAACAAGGTTTCACCACTGCTGAGGGAATTTTCACAGCTGGCTGGTCAGAAGAAGGTTTCGGgtaagttttctttcttctttatatccagtctgttaattgtttcgatatcacacacacatagatatactcgagcatgatgatgatgtatctttgttgaaccgaataacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G24180.1 |
intron # | 19 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G24180.1 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: LOC_Os10g33420.1 (Oryza sativa), 5'ss of exon 16
ATGCAGCTGCGGCTACTATGATCCTCTCTGGAATGGAAGAACAAGGTTTCACCACTGCTGAGGGAATTTTCACAGCTGGCTGGTCAGAAGAAGGTTTCGGgtaagtttt-ctttcttctttatatccagtctgttaattgtttcgatatcaca-cacacatagatatactcgagcatgatgatgatgtatctttgttgaaccgaataacag
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ACGGTGTTGCTGCAAACATGCTGCTCCATGGAATGGAGCATCAAGGATTCACCACTGCCGAAGGAATTTTTATTGCTGGTTGGTCAGAAGAAGGATATGGgtaagcactaccttgttcttcgaat--aatctcatatttcgcaattcacaacaatgcaacttgcttcgcatcgattttgctctggcgcacctctcttaaacc---------
upper sequence: AT3G24180.1 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: Vv05s0051g00910.t01 (Vitis vinifera), 5'ss of exon 14
ATGCAGCTGCGGCTACTATGATCCTCTCTGGAATGGAAGAACAAGGTTTCACCACTGCTGAGGGAATTTTCACAGCTGGCTGGTCAGAAGAAGGTTTCGGgtaagttttctttcttctttatatccagtctgttaattgtttcgatatcacacacacataga-tatactcgagcatgatgatgatgtat-ctttgttgaaccgaataacag
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ATGGTGTAGCAGCTACCATGATCCTTTCTGGTATGGAGGAACAAGCTTTCACTACTGCAGAAGGTATTTTCACTGCTGGCTGGTCAGAGGAGGGATATGGgtaagttctgta----cttaaaaa--attttgttgatc-ttttaatagcactgctgtattgtctagtttttcttgtattattcgtttatattttgatatattggact----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|164208962|gb|ES033117.1|ES033117EST: ACCACTGCTGAGGGAATTTTCACAGCTGGCTGGTCAGAAGAAGGTTTCGG ATATTGGTTCCAGACACCGGAAGGTTGGACAATGGATGGGCATTACCGGTC
genomic: ACCACTGCTGAGGGAATTTTCACAGCTGGCTGGTCAGAAGAAGGTTTCGGgtaagttttc ... cgaataacagATATTGGTTCCAGACACCGGAAGGTTGGACAATGGATGGGCATTACCGGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGCAGCTGCGGCTACTATGATCCTCTCTGGAATGGAAGAACAAGGTTTCACCACTGCTGAGGGAATTTTCACAGCTGGCTGGTCAGAAGAAGGTTTCGGgtaagttttctttcttctttatatccagtctgttaattgtttcgatatcacacacacatagatatactcgagcatgatgatgatgtatctttgttgaaccgaataacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG