Sequence
atgc intronic sequence ATGC exonic sequenceGAGTTGCATTTAGAACGAGATCGAAGATTGATGTGATGGATGATGGTTTTAAATGGAGGAAGTATGGCAAGAAATCTGTCAAAAACAACATTAACAAGAGgtaacttattcatttacaaattactcatttgatctaattaatatgttttactagtacttgtttttaacataacatatggttgcttgataattttctataa...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G64810.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G64810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os05g09020.2 (Oryza sativa), 5'ss of exon 2
GAGTTGCATTTAGAACGAGATCGAAGATTGATGTGATGGATGATGGTTTTAAATGGAGGAAGTATGGCAAGAAATCTGTCAAAAACAACATTAACAAGAGgtaact---tattcatttacaaattactcatttgatctaattaatatgttttactagtacttgtttttaacataa-catatggttgcttgataattttctataa
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GGATCGGGTTCAGGACGAGGTCGGAGGTGGAGATTCTTGATGATGGCTTCAAGTGGAGGAAGTACGGCAAGAAAGCTGTCAAGAACAGCCCAAATCCAAGgtacacgaatattgacgtcactgccactatgcccatttggctatcaatcttaattaattagtaccacaagtttaatcactagcttaattactggcgttct----
upper sequence: AT5G64810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G163054_T02 (Zea mays), 5'ss of exon 2
GAGTTGCATTTAGAACGAGATCGAAGATTGATGTGATGGATGATGGTTTTAAATGGAGGAAGTATGGCAAGAAATCTGTCAAAAACAACATTAACAAGAGgta-acttattcatttacaaattactcatttgatctaa-ttaatatgttttactagtacttgtttttaacataacatatggttgcttgataattttctataa------------------------------------------------------------
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GGATCGGGTTCAGAACGAGATCAGAGGTGGAGATCTTGGACGATGGATTCAAATGGAGGAAGTATGGCAAGAAGGCTGTCAAGAGTAGCCCAAATCCAAGgtacacccatatgttcacctggaatatagttaaaataaattcccagaacatgaaagcaacaagcagaaaagcaacgaagaagaaataga-aacgaaatggaatgtttactggatcgatgctgatggatatataattgtgcatgcacacgtacgtacgtgcag
upper sequence: AT5G64810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA04G39650.1 (Glycine max), 5'ss of exon 3
GAGTTGCATTTAGAACGAGATCGAAGATTGATGTGATGGATGATGGTTTTAAATGGAGGAAGTATGGCAAGAAATCTGTCAAAAACAACATTAACAAGAGgtaacttattcatttacaaattactcatttgatctaatta----atatgttttactagtacttgtttttaacataacatatggttgcttgataattttctataa
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TGATCACGTTTAGAACCAGATCGCAGCTTGAGGTTATGGATGATGGATATAAATGGAGGAAATACGGAAAGAAGACAGTGAAGAACAATCCCAACCCAAGgtaataaat--attctctatctctctatttaattttattatcaaaaatgtttttattgaaagaattagaatattgttatgaatccatttaagtatttag-gta-
upper sequence: AT5G64810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv07s0031g01710.t01 (Vitis vinifera), 5'ss of exon 2
GAGTTGCATTTAGAACGAGATCGAAGATTGATGTGATGGATGATGGTTTTAAATGGAGGAAGTATGGCAAGAAATCTGTCAAAAACAACATTAACAAGAGgtaacttattcatttacaaattactcatttgatctaattaatatgttttactagtacttgtttttaacataacatatggttgcttgataattttctataa--
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GGGTTGCCTTCAAGACGAAATCGGATTTGGAGATCATGGATGATGGGTTTAAGTGGAGGAAGTATGGGAAGAAATCAGTGAAGAACAGCCCCAATCCAAGgtaaaatgatcatc-atacatatcatattaagtcatttttttccattttaaaattattaccgtttaaacccacgatggattaattaa-attggatcatgagtMapped 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|116420964|gb|EG463556.1|EG463556EST: AAATGGAGGAAGTATGGCAAGAAATCTGTCAAAAACAACATTAACAAGAG GAATTACTACAAATGCTCAAGTGAAGGTTGCTCGGTGAAGAAGAGGGTAGA
genomic: AAATGGAGGAAGTATGGCAAGAAATCTGTCAAAAACAACATTAACAAGAGgtaacttatt ... taatataaagGAATTACTACAAATGCTCAAGTGAAGGTTGCTCGGTGAAGAAGAGGGTAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGTTGCATTTAGAACGAGATCGAAGATTGATGTGATGGATGATGGTTTTAAATGGAGGAAGTATGGCAAGAAATCTGTCAAAAACAACATTAACAAGAGgtaacttattcatttacaaattactcatttgatctaattaatatgttttactagtacttgtttttaacataacatatggttgcttgataattttctataa
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacataac