Sequence
atgc intronic sequence ATGC exonic sequenceTTTTGGTCGAATTGGAAGATTGGTCCTCCGCATCGCAACCTTTAGGGATGATATCGAGGTTGTAGCAGTCAACGATCCATTCATAGATGCCAAGTACATGgtaagtagtagatgcaacttacaatgccgtttttgctcttactagtttctaatgtatttttcgccaggaatatcttataactgttgctcatactcttttc...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G16300.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G16300.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 5'ss of exon 5
TTTTGGTCGAATTGGAAGATTGGTCCTCCGCATCGCAACCTTTAGGGATGATATCGAGGTTGTAGCAGTCAACGATCCATTCATAGATGCCAAGTACATGgtaagtagtagatgcaacttacaatgccgtttttgctcttactagtttctaatgtatttttcg--ccaggaatatcttataactgttgctcatactcttttc
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GTTTGGGCGAATTGGGAGGTTGGTCCTGCGTATTGCAACCAGTAGAGATGATATTGAAGTTGTTGCTGTCAATGATCCTTTCATTGATGCTAAATACATGgtaagaaaatagttcaaattatttgcctacctcccatatttcataccttggttgcttcatttaatcaatgaacattatattttcaattttggggggatga--
upper sequence: AT1G16300.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv19s0085g00600.t01 (Vitis vinifera), 5'ss of exon 5
TTTTGGTCGAATTGGAAGATTGGTCCTCCGCATCGCAACCTTTAGGGATGATATCGAGGTTGTAGCAGTCAACGATCCATTCATAGATGCCAAGTACATGgtaagtagtagatgcaacttacaatgccgtttttgctcttactagtttctaatgtatttttcgccaggaatatcttataactgttgctcatactcttttc------
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TTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACATGgtaaggatt---tgcaa-ttagcctgtcttcttgcagatcacctctttagaaaat-ttttggatgatgaatttttggccactattgtata-atccagttcgtgtttMapped 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|19875542|gb|AU236373.1|AU236373EST: ATATCGAGGTTGTAGCAGTCAACGATCCATTCATAGATGCCAAGTACATG GCTTACATGTTCAAGTNTGATTCTACTCATGGAAATTACAAAGGAACTATC
genomic: ATATCGAGGTTGTAGCAGTCAACGATCCATTCATAGATGCCAAGTACATGgtaagtagta ... tcttatgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAAATTACAAAGGAACTATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTTGGTCGAATTGGAAGATTGGTCCTCCGCATCGCAACCTTTAGGGATGATATCGAGGTTGTAGCAGTCAACGATCCATTCATAGATGCCAAGTACATGgtaagtagtagatgcaacttacaatgccgtttttgctcttactagtttctaatgtatttttcgccaggaatatcttataactgttgctcatactcttttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctcttac