Sequence
atgc intronic sequence ATGC exonic sequenceCTGCTGTCCAGGAGCAGTCATCTAATGGATATTTGCTTATTGCAGCTAGTGGAGGCCTTAACCAACAAAGAACAGGAgtaagtgaaattatgtgtcaagaataaacgtgttaggatattacaattatattgcttatttgcccaactaaaaaagattatgctgcttattgtccttagggagttaggacctgcattttgaaaataatgttctctttgtgtgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G16650.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G16650.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA17G15170.1 (Glycine max), 5'ss of exon 3
CTGCTGTCCAGGAGCAGTCATCTAATGGATATTTGCTTATTGCAGCTAGTGGAGGCCTTAACCAACAAAGAACAGGAgtaagtgaaat-tatgtgtcaagaataaacgtgttaggatattacaattatattgcttatttgcccaactaaaaaagattatgctgcttattgtccttagggagttaggacctgcattttgaaaataatgttctctttgtgtgcag
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CTGCTGTACGCGAGCGCAAGTCTAAAGGCTACTTGCTAATTGCAACTAGTGGAGGACTGAACCAACAAAGAACTGGGgtaagtatgacataagttttatga-ta-------tggaatattgtcattgagacattgtaagaatcttctagaaga---tctgctggttactgat-ttgatgatcaactacc----------------------------------
upper sequence: AT4G16650.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv00s0229g00100.t01 (Vitis vinifera), 5'ss of exon 3
CTGCTGTCCAGGAGCAGTCATCTAATGGATATTTGCTTATTGCAGCTAGTGGAGGCCTTAACCAACAAAGAACAGGAgtaagtgaaa------ttatgtgtcaagaataaacgtgttaggatat-tacaat-------tatattgcttatttgcccaactaaaaaagat----tatgctgcttattgtccttagggagttaggacctgcattttgaaa---ataatgttctctttgtgtgcag
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CTGCTGTACGCGAGAAGTCGTCAAATGGCTATTTGCTTATTGCAGCAAGTGGAGGGCTGAACCAACAAAGAACAGGAgtaagtataaagattcttctgtagctgctacatgttcattaaaacatatatagtggaaggatatgctgttgccgtgtcaacttcataaacatattataaacttgtttcagttatttacttgtttatcctttttgcatggaatttacaatccatttcctgcactcagMapped 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|124868723|gb|EH953160.1|EH953160EST: ATATTTGCTTATTGCAGCTAGTGGAGGCCTTAACCAACAAAGAACAGGA ATAACTGATGCAGTGGTTGTTGCACGGATTCTTAATGCTACTTTAGTTGTA
genomic: ATATTTGCTTATTGCAGCTAGTGGAGGCCTTAACCAACAAAGAACAGGAgtaagtgaaa ... ttgtgtgcagATAACTGATGCAGTGGTTGTTGCACGGATTCTTAATGCTACTTTAGTTGTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGCTGTCCAGGAGCAGTCATCTAATGGATATTTGCTTATTGCAGCTAGTGGAGGCCTTAACCAACAAAGAACAGGAgtaagtgaaattatgtgtcaagaataaacgtgttaggatattacaattatattgcttatttgcccaactaaaaaagattatgctgcttattgtccttagggagttaggacctgcattttgaaaataatgttctctttgtgtgcag
- - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC