Sequence
atgc intronic sequence ATGC exonic sequenceATTTGGATGAGGATGAACAGCCAAAGAAGAAAATCAGAATTGGCAGTCCTGCTTGTCAGTGGATCTCAGTCTATAATGCTCGTCGTCCCATGAAACAGAGgtaaaagttgcatattcacttaaaagtttcgaaaaccttcgtgaatcaaatttctcaccccggtttaatgccatttttatttgtgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G18190.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G18190.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os03g57940.1 (Oryza sativa), 5'ss of exon 12
ATTTGGATGAGGATGAACAGCCAAAGAAGAAAATCAGAATTGGCAGTCCTGCTTGTCAGTGGATCTCAGTCTATAATGCTCGTCGTCCCATGAAACAGAGgtaaaagttgcatattcacttaaaagtttcgaaaaccttcgtgaatcaaatttctcaccccggtttaatgccatttttatttgtgtag----------------
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ATCTTGACGATGATGAACAGCCCAAGAAGAAAGTTAGGTTGGGAAGCCCAGCAACTCAATGGATCTCAGTTTATAATGCTAGGCGGCCCATGAAGCAGAGgtaa---tgccctaaaaactgaaaatggtgcaaagtctctgtgtctgttatttattttcccaaac-attgtcctcgcaatgcacttgcctttaagtgtggacgc
upper sequence: AT5G18190.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os01g56580.1 (Oryza sativa), 5'ss of exon 12
ATTTGGATGAGGATGAACAGCCAAAGAAGAAAATCAGAATTGGCAGTCCTGCTTGTCAGTGGATCTCAGTCTATAATGCTCGTCGTCCCATGAAACAGAGgtaa--aagttgcatattcacttaaaagtttcgaaaaccttcgtgaatcaaatttctcaccccggtttaatgccatttttatttgtgtag--------------
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ATCTTGAAGAAGATGAACAACCAAAGAAGAAAGTTCGACTTGGAAGCCCAGCAAATCAGTGGATATCAGTCTATAATGCTAGGAGACCCATGAAACAAAGgtaacaaactttgacctttgcatgcttgttgt---aatcttcattt-tcacagtgagctcaactatatgaccgtattttgtgatgtatgacgtgaagtttgatc
upper sequence: AT5G18190.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 12
ATTTGGATGAGGATGAACAGCCAAAGAAGAAAATCAGAATTGGCAGTCCTGCTTGTCAGTGGATCTCAGTCTATAATGCTCGTCGTCCCATGAAACAGAGgtaaaagttgcat-attcacttaaaag----tttcgaaaaccttcgtgaatcaaatttctcaccccggtttaatgccatttttatttg--tgtag-----
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ATCTGGAAGAAGATGAGCAACCTAAGAAGAAAGTGCGATTGGGGAGTCCTGCTACTCAGTGGATATCAGTGTATAATGCTCGCCGTCCCATGAAGCAGAGgtaattaatacatcattctctgtctagcttgttcttaataatgttgcagattatttgttaaatcataaacttttcttgctttgatgcaaaagcagttgaa
upper sequence: AT5G18190.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 12
ATTTGGATGAGGATGAACAGCCAAAGAAGAAAATCAGAATTGGCAGTCCTGCTTGTCAGTGGATCTCAGTCTATAATGCTCGTCGTCCCATGAAACAGAGgtaaa-agttgcatattcacttaaaa----gtttcgaaaaccttcgtgaat-------caaatttctcaccccggtttaatgccatttttatttgtgtag
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ATTTGGAAGAAGATGAGCAGCCAAAGAAGAAAGTACGATTAGGTAGCCCTGCGACCCAGTGGATATCAGTTTACAATGCACGTCGTCCCATGAAGCAGAGgtaaatggatatgttctcagtccaaatggcattctttaatctgtgatatatggttctgtaatatccaaactcctacatgtggtttgttttactcatggatMapped 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|19875875|gb|AU236706.1|AU236706EST: GCTTGTCAGTGGATCTCAGTCTATAATGCTCGTCGTCCCATGAAACAGAG ATATCACTACAACGTTGCAGACTCAAGGTTGCATCAGCATGTACAGAAGGG
genomic: GCTTGTCAGTGGATCTCAGTCTATAATGCTCGTCGTCCCATGAAACAGAGgtaaaagttg ... atttgtgtagATATCACTACAACGTTGCAGACTCAAGGTTGCATCAGCATGTACAGAAGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTTGGATGAGGATGAACAGCCAAAGAAGAAAATCAGAATTGGCAGTCCTGCTTGTCAGTGGATCTCAGTCTATAATGCTCGTCGTCCCATGAAACAGAGgtaaaagttgcatattcacttaaaagtttcgaaaaccttcgtgaatcaaatttctcaccccggtttaatgccatttttatttgtgtag
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