Sequence
atgc intronic sequence ATGC exonic sequenceTAGATGGATTGTTGGGGAAACATTGGAGGAACCTTGGATTGATCTTTAACTGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAGgtaaattaataatcaatgttcattttctttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G77690.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G77690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA06G11540.1 (Glycine max), 5'ss of exon 4
TAGATGGATTGTTGGGGAAACATTGGAGGAACCTTGGATTGATCTTTAACTGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAGgtaaattaataatcaatgttcattttctttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcag
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TTGATGGACTTTTGGGCAAACACTGGAGGAATCTTGGTCTTTTTTTCAACTGTACTTTCCTTCTGTTTGGATCAGTAATTCAACTAATTGCTTGTGCAAGgtaagacagtagtagatcatgattttcttaat------attgcattataaactaagtttatatatacaacaatattgtttcag
upper sequence: AT1G77690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA04G43150.2 (Glycine max), 5'ss of exon 4
TAGATGGATTGTTGGGGAAACATTGGAGGAACCTTGGATTGATCTTTAACTGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAGgtaaattaataatcaatgttcattt---tctttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcag
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TTGATGGACTTTTGGGCAAACACTGGAGAAATCTTGGTCTTTTTTTCAACTGTACTTTCCTTCTGTTTGGATCAGTAATTCAACTAATTGCTTGTGCAAGgtaagacagtagatcatgcttttttgaatattatatatataatctgtatat-ttcatcataaactgagaatttatattgttt-cag
upper sequence: AT1G77690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv18s0001g03540.t01 (Vitis vinifera), 5'ss of exon 3
TAGATGGATTGTTGGGGAAACATTGGAGGAACCTTGGATTGATCTTTAACTGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAGgtaaatt----------aataatcaatgttcattttctttattatatggttttttcatattgaaaattaatta-atataaaaaatgatttgcag----------------------------
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TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaaaaggggaaaggaaaaatcattacaatgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcag
upper sequence: AT1G77690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ36050 (Selaginella moellendorffii), 5'ss of exon 3
TAGATGGATTGTTGGGGAAACATTGGAGGAACCTTGGATTGATCTTTAACTGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAGgtaaattaataatcaatgttc-------attttctttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcag---------
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TCGATGGTCTCTTGGGACCATACTGGAAGGCCGCTGGATTCACTTTTAACTGTACATTTCTTCTCTTTGGCTCGGTGATTCAGCTCATTGCGTGTGGAAGgtaagctcaagttcaagttctcgagagaaggaaacaaaaaagaagagagaagcaagttggttcttcactggcactaacatcttctccccttctttacag
upper sequence: AT1G77690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ18760 (Selaginella moellendorffii), 5'ss of exon 3
TAGATGGATTGTTGGGGAAACATTGGAGGAACCTTGGATTGATCTTTAACTGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAGgtaaattaataatcaatgttc------attttctttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcag---------
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TCGATGGTCTCTTGGGACCATACTGGAAGGCCGCTGGATTCACTTTTAACTGTACATTTCTTCTCTTTGGCTCGGTGATTCAGCTCATTGCGTGTGGAAGgtaagctcaagttcaagttctcgagaaaaggaaaagaaaaaaagagagaagtaagttggttcttcattggcactaacatcttctccctttcgttacagMapped 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|116477708|gb|EG520300.1|EG520300EST: TGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAG CAATATATATTATATTAATGACAAATTGGACAAGAGGACATGGACATACAT
genomic: TGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAGgtaaattaat ... tgatttgcagCAATATATATTATATTAATGACAAATTGGACAAGAGGACATGGACATACAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAGATGGATTGTTGGGGAAACATTGGAGGAACCTTGGATTGATCTTTAACTGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAGgtaaattaataatcaatgttcattttctttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA