Sequence
atgc intronic sequence ATGC exonic sequenceCCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttactttcaaaaagttcgcctttctcgtctaaatgaactatatggctcttaatgtataggtttcaaaattttgccatttc...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G01040.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G26480.1 (Glycine max), 5'ss of exon 4
CCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttactttcaaaaagttcgcctttctcgtctaaatgaactatatggctcttaatgtataggtttcaaaattttgccatttc
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TCTCAGTGACACCAGTCCACGTAAATTTGCATCTAAATTGCAGGCCAGAAGTCCAAAATACATATCTTTACTCAACCATCTCCGCATATACTTACCAGAGgtgaattgcattcaacaatgatcattctgttttctttgtccatctccacatatctattgttgcttgttcaagtagatcattgttaactttatattgcttt
upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G05950.1 (Glycine max), 5'ss of exon 4
CCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttact-ttcaaaaagttcgcctttctcgtctaaatgaactatatggctcttaatgtataggtttcaaaattttgccatttc
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TCTCAGTGATACCAATCCATATAAATTTGCCTCAAAATTGCAGGCAAGAAGTCCAAAGTATATATCTTTGCTCAACCATCTCCGCATTTACATACCTGAGgtaagttggattcaacaattatactctttctgtctttcctctctctctctctctctctctacatatatatatatatatatatatatatatatatatatat-
upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G49960.1 (Glycine max), 5'ss of exon 4
CCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttactttcaaaaagttcgcctttctcgtctaaatgaactatatggctcttaatgtataggtttcaaaattttgccatttc
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TCTCAGTGACATCAGTCCACGTAAATTTGCATCTAAATTGCAGGCCAGAAGTCCAAAGTACATATCTTTACTCAACCATCTCCGCATATACTTACCAGAGgtaaattgcattcaacaatgatcattctgttttctttgtccatctctctctctctctctctctctctctctctatatatatatatatatatatatatata
upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 5'ss of exon 4
CCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttactttcaaaaagttcgcctttctcgtctaaatgaactatatg-gctcttaatgtataggtttcaaaattttgccatttc----
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TCTCAGTGAGACTACTCCACGAAGATTTGCTTCGAAATTGCAGGCTAGAAGTCCTAAGTACATTTCCTTGCTCAACCATCTCCGCATATATATACCAGAGgtaatctgatgtggtttgatatatttctcca---cttattgtgtagatctgaa--aactataaaagcttttggttaatatatacaaaatatttggtattagaggtMapped 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|116476805|gb|EG519397.1|EG519397EST: GTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAG CTTTTTCCGAACTTAGACAAGGTAGTGTTCTTAGATGATGATATAGTGATA
genomic: GTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaa ... atttggacagCTTTTTCCGAACTTAGACAAGGTAGTGTTCTTAGATGATGATATAGTGATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttactttcaaaaagttcgcctttctcgtctaaatgaactatatggctcttaatgtataggtttcaaaattttgccatttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaaagt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttctcg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatgaac