Sequence
atgc intronic sequence ATGC exonic sequenceGTGATGTGACGGATGGTTACAAAGCTTATGTTGCAAACAGAGAGAGCTTCAAAGAAATTATGGTTTCTCCATCAATGTTCCTTGATCATCTTCCTTGGAGgtaactctctaaaacacaactttgatttttttaagtcaaaacagagcctctctgaatcattgctactgcaatttattgacttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G05790.2 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G05790.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os01g67420.1 (Oryza sativa), 5'ss of exon 12
GTGATGTGACGGATGGTTACAAAGCTTATGTTGCAAACAGAGAGAGCTTCAAAGAAATTATGGTTTCTCCATCAATGTTCCTTGATCATCTTCCTTGGAGgtaactctctaaaacacaactttgatttttttaagtcaaaacagagcctctctgaat----cattgctactgcaatttat--------tgacttcag----
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GTCGCAAGAACAAGAGTTACAAAGCATTTATAGCCAATCGACAAGATTTTATGGACCTTGTTGTTACACCTCGTATGTTCCTTGATCATCTTCCATGGAGgtatatcttgagaactctgctcaaaccatattatgttgaaactcgttagctttaagggttgtatttctg-tgccattcatactaagaataccttcagagta
upper sequence: AT1G05790.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G176542_T02 (Zea mays), 5'ss of exon 12
GTGATGTGACGGATGGTTACAAAGCTTATGTTGCAAACAGAGAGAGCTTCAAAGAAATTATGGTTTCTCCATCAATGTTCCTTGATCATCTTCCTTGGAGgtaactctctaaaaca-caactttgat----ttttttaagtcaaaacagagcctctctgaatcattgctactgcaatttattgacttcag-------------
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GCCAAAAGAACAAGAGTTACAAAGCGCTAATTGCTCGTCGAAGAGATTTTATGGACCTTGTTGTGACACATCACATGTTCCTTGATCATCTCCCTTGGAGgtatgtcctaaaaaaatctactcaaatggaagctatttatatatttaagtactattccaaatgaaatttatt---atgtatgaaattcagaccattctcattt
upper sequence: AT1G05790.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA10G44440.1 (Glycine max), 5'ss of exon 11
GTGATGTGACGGATGGTTACAAAGCTTATGTTGCAAACAGAGAGAGCTTCAAAGAAATTATGGTTTCTCCATCAATGTTCCTTGATCATCTTCCTTGGAGgt-----aactctctaaaacacaactttgatttttttaa-gtcaaaac--------agagcctctctgaatcattgctactg--caatttattgactt-cag
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TAGAGAGGGAAAAATGTTATAGAGCTTACATAGCAAATAGAGAAAGCTTCAAAGATATTATTGTTTCACCATCCATGTTCCTTGACCATCTTCCTTGGAGgtatggcaaattaccatcagatcatttcctcgtttctaaagttaaaatgcttgataagttcttacttaagttatttcttttggtcaaatgttcgacatgcag
upper sequence: AT1G05790.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA20G39210.2 (Glycine max), 5'ss of exon 12
GTGATGTGACGGATGGTTACAAAGCTTATGTTGCAAACAGAGAGAGCTTCAAAGAAATTATGGTTTCTCCATCAATGTTCCTTGATCATCTTCCTTGGAGgt-----aactctctaaaacacaactttgatttttttaag-tcaaaac--------agagcctctctgaatcattgctactg--caatttattgactt-cag
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TAGAGAGGGGAAAATGTTATAGAGCTTACATAGCAAATAGAGAAAGCTTCAAAGATATTATTGTTTCACCATCCATGTTCCTTGACCATCTTCCTTGGAGgtatggcaaattaccatcgtatcctttcctcgtttctaaacttgaaatgcttgataagttcttacttgagttactacttctggtcaaatgttcgacttgcag
upper sequence: AT1G05790.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv05s0124g00200.t01 (Vitis vinifera), 5'ss of exon 7
GTGATGTGACGGATGGTTACAAAGCTTATGTTGCAAACAGAGAGAGCTTCAAAGAAATTATGGTTTCTCCATCAATGTTCCTTGATCATCTTCCTTGGAGgtaactct-ctaaaacacaactttgat--ttttttaagt------caaaacagagcctctctgaatcattg-----ctactgcaatttattgacttcag--------------
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AAGAGAAGGCACCGAGCTATAAAGCATATATATCAGATAGAGAAAGGTTCAAGGATATCATTGTTTCACCATCTATGTTCCTTGACCATCTCCCTTGGAGgtatctgaactcacttgtactttccatagttgtttaaactgtttgcaacataggaacttgacagaaaagtatacacctgatgccattctttcgaccaaattcatgttttacagMapped 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|19743046|gb|AU228399.1|AU228399EST: AAAGAAATTATGGTTTCTCCATCAATGTTCCTTGATCATCTTCCTTGGAG ATGTAGACACGCGCTGCAGAAGGTTCTAGAATCTCG-AATCTCTTCTTCGA
genomic: AAAGAAATTATGGTTTCTCCATCAATGTTCCTTGATCATCTTCCTTGGAGgtaactctct ... ttgacttcagATGTAGACACGCGCTGCAGAAGGTTCTAGAATCTCGGAATCTCTTCTTCGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGATGTGACGGATGGTTACAAAGCTTATGTTGCAAACAGAGAGAGCTTCAAAGAAATTATGGTTTCTCCATCAATGTTCCTTGATCATCTTCCTTGGAGgtaactctctaaaacacaactttgatttttttaagtcaaaacagagcctctctgaatcattgctactgcaatttattgacttcag
- - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG