Sequence
atgc intronic sequence ATGC exonic sequenceTGATCTTCTTTCTGGCTTCATCCTCTGGTTTACCGCCTTCTCCATGCAGACACCCAACCCGTATCAGTATCCCATTGGCAAGAAACGCATGCAACCACTGgtttgtatcatccttttaaagactaatgcacatgatctgtcttccattagtatatttctattatatgttatgttattgaatcggcctaagcaagcttgttttctgctattgatatctctgtgcaactattaacaccttcgacaagtcaataaagtttttccgatttctcaatatgtgatttttggttcaaatcctttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G39450.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G39450.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G10580.1 (Glycine max), 5'ss of exon 3
TGATCTTCTTTCTGGCTTCATCCTCTGGTTTACCGCCTTCTCCATGCAGACACCCAACCCGTATCAGTATCCCATTGGCAAGAAACGCATGCAACCACTGgtttgta-tcatccttttaaagactaatgcacatgatctgtcttccattagtatatttctattatatgttatgttattgaatcggcctaagcaagcttgttttctgctattgatatctctgtgcaactattaacaccttcgacaagtcaataaagtttttccgatttctcaatatgtgatttttggttcaaatcctttcag
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TGACCTCCTTTCTGGATTCATCCTCTGGTTCACTGCATTTTCCATGCAAACACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctcctaatttaatattctgtttgaaactatctgaatcatcatcttctgttcttgcctagtaatatgat-ttcagtgactcttaggag--ttactta--------------------------------------------------------------------------------------------------
upper sequence: AT2G39450.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA18G52280.1 (Glycine max), 5'ss of exon 3
TGATCTTCTTTCTGGCTTCATCCTCTGGTTTACCGCCTTCTCCATGCAGACACCCAACCCGTATCAGTATCCCATTGGCAAGAAACGCATGCAACCACTGgtttgtatcatccttttaaagactaatgcacatgatctgtcttccattagtatatttctattatatgttatgttattgaatcggcctaagcaagcttgttttctgctattgatatctctgtgcaactattaacaccttcgacaagtcaataaagtttttccgatttctcaatatgtgatttttggttcaaatcctttcag
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TGACCTCCTTTCTGGATTCATCCTCTGGTTCACTGCATTTTCCATGCAAACACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttcttctaattaatattctgtttgaaactatctgaatcatcgtcttctgttcttgcctattgataggat-ttcagtgactcttaggag--ttacttaa-------------------------------------------------------------------------------------------------
upper sequence: AT2G39450.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv13s0019g00020.t01 (Vitis vinifera), 5'ss of exon 3
TGATCTTCTTTCTGGCTTCATCCTCTGGTTTACCGCCTTCTCCATGCAGACACCCAACCCGTATCAGTATCCCATTGGCAAGAAACGCATGCAACCACTGgtttgtatcatccttttaaagactaatgcacatgatctgtcttccattagtatatttctattatatgttatgttattgaatcggcctaagcaagcttgttttctgctattgatatctctgtgcaactattaacaccttcgacaagtcaataaagtttttccgatttctcaatatgtgatttttggttcaaatcctttcag
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TGATCTTCTTTCTGGCTTCATTCTGTGGTTTACTGCATTTTCCATGCAAACACCGAACCCATATCAGTACCCCATTGGAAAGAAACGTATGCAGCCATTGgtcagta--attctgc-aattattcattatagtgatcagatgcatatatctaaattcatataaacctatgtagttctacatgcaacttgacaagttcacttaa-------------------------------------------------------------------------------------------------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|125204736|gb|EL219690.1|EL219690EST: ATTGGCAAGAAGCGCATGCAACCACTG GGAATCCTAGTCTTTGCATCAGTGATGGCAACACTTGGATTGCAGA
genomic: ATTGGCAAGAAACGCATGCAACCACTGgtttgtatca ... atcctttcagGGAATCCTAGTCTTTGCATCAGTGATGGCAACACTTGGATTGCAGA
EST:
gi|124780536|gb|EH870479.1|EH870479EST: GGCAAGAAACGCATGCAACCACTG GGAATCCTAGTCTTTGCATCAGTGATGGCAACACTTGGATTGCAGATTATC
genomic: GGCAAGAAACGCATGCAACCACTGgtttgtatca ... atcctttcagGGAATCCTAGTCTTTGCATCAGTGATGGCAACACTTGGATTGCAGATTATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATCTTCTTTCTGGCTTCATCCTCTGGTTTACCGCCTTCTCCATGCAGACACCCAACCCGTATCAGTATCCCATTGGCAAGAAACGCATGCAACCACTGgtttgtatcatccttttaaagactaatgcacatgatctgtcttccattagtatatttctattatatgttatgttattgaatcggcctaagcaagcttgttttctgctattgatatctctgtgcaactattaacaccttcgacaagtcaataaagtttttccgatttctcaatatgtgatttttggttcaaatcctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA