Sequence
atgc intronic sequence ATGC exonic sequenceTGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTCAGgtgcgtgttaaggtcatcctatttaaacattgcatccagtaatagattgtgtagctgagataggtgttttatatgctatagcagttctctttgttaggtttgcttatacgtagatttttttttccttcgaaacaatcatgtaggctcactgctcacaggaacactgcaatctcattcttttttgttcctttgtttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G11800.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G11800.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA17G36310.1 (Glycine max), 5'ss of exon 11
-TGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTCAGgtgcgtgttaaggtcatcctatttaaacattgcatccagtaatagattgtgtagctgagataggtgttttatatgct--atagcagttctctttgttaggtttgctt--atacgtagatttttttttccttcgaaacaatcatg-taggctcactgctcacaggaacactgcaatctcattcttttttgttcctttgtttcag
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TTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTATTAGTCTTTTCAATGTTTCCACAagtgagttcctccat-atcttatttttg-gttttattttgta-tgctttcagtgtcaattat-ggtttttgagctgttggattcttgttctttccttttggcccatagagataagcagagattagcattttgcttatctgttaagatactatcatctgttgctatt-tgctaagatgcaattgttttgtgtac-ttggtttcta
upper sequence: AT4G11800.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA14G08860.1 (Glycine max), 5'ss of exon 11
TGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTCAGgtgcgtgttaaggtcatcctatttaaacattgcatccagtaatagattgtgtagctgagataggtgttttatatgct--atagcagttctctttgttaggtttgctta-tacgtagatttttttttccttcgaaacaatcatg-taggctcactgctcacaggaacactgcaatctcattcttttttgttcctttgtttcag
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TGCATTGGGAAATATCTTAAAATTTCGGAAGAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTACTAGTCTTTTCAATGTTTCCACAAgtgagttcctccat-atctttgttatttttagttttattttgtatgctttctgtcaattat-ggtttttgaactgttggattcttgttctttcctttgggcccattgagtaagcagagattagcatttggcttatctgttaagatactatcatctgttgctatt-tgctaagatgcaattgttttgtgtacttggtttctag
upper sequence: AT4G11800.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 5'ss of exon 12
TGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTCAGgtgcgtgttaaggtcatcctatttaaacattgcatccagtaatagattgtgtagctgagataggtgttttatatgctatagcagttctctttgttaggtttgcttatacgtagatttttttttccttcgaaacaatcatgtaggctcactgctcacaggaacactgcaatctcattcttttttgttcctttgtttcag
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TGCATTGGGAAATATTTTGAAGTTCCGAAAGAAGAATTGGCAGTTTGATTTCATTGGTGGCATTATATATTTTGTATTGGTTTTTTCTATGTTTCCACAGgtgagt-ttctgttggttttcttatgatgtcttgccatattgattaccaagactctgtggttgg-acccgaaaagtgaaaac----ctgataattaagatgacttt--------------------------------------------------------------------------------------------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|116416375|gb|EG458967.1|EG458967EST: TCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCATCAG TGTAAGCTAGCTCACGTCTTACGAGGTGATTCGTTTTCTGGTCACCTGGAG
genomic: TCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTCAGgtgcgtgtta ... tttgtttcagTGTAAGCTAGCTCACGTCTTACGAGGTGATTCGTTTTCTGGTCACCTGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTCAGgtgcgtgttaaggtcatcctatttaaacattgcatccagtaatagattgtgtagctgagataggtgttttatatgctatagcagttctctttgttaggtttgcttatacgtagatttttttttccttcgaaacaatcatgtaggctcactgctcacaggaacactgcaatctcattcttttttgttcctttgtttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG