Sequence
atgc intronic sequence ATGC exonic sequenceGTATATTTCTTGCACGAATTTTGTAGTTTAAGCAAGAGCCTCCAGGTGGTGCAGCAGCTGCGACTTTTTAGgtatgtatttacaagaacctaattacgactggtgtttatcagttactgacttcagaacatttgtagtagctattatagtatcgtgtctgctctttctttgtcaagtgcttctttaagaatagtctttgatggtctttttctctattggctgtcttttcaatgatttttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G06670.2 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G06670.2 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA17G03570.1 (Glycine max), 5'ss of exon 14
GTATATTTCTTGCACGAATTTTGTAGTTTAAGCAAGAGCCTCCAGGTGGTGCAGCAGCTGCGACTTTTTAGgtatgt---atttacaagaacctaattacgactggtgtttatcagttactgacttcagaacatttgtagtagctattatagtatcgtgtctgctctttctttgtcaagtgcttctttaagaatagtctttgatggtctttttctctattggctgtcttttcaatgatttttcag
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GTTTATTTCTTACACGAGTTTTGTAGTTTGAGCAAGAGCCTGCAGATGGTCCAGCAGCTTCGGCTTTTTAGgtatgttaaatttgattggtcatggtgagacagcctgttttgctgcttgtcttttaagaattaatttcgtaagactgatagcagaatatttattaactaa--------------------------------------------------------------------------
upper sequence: AT3G06670.2 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA07G37040.1 (Glycine max), 5'ss of exon 12
GTATATTTCTTGCACGAATTTTGTAGTTTAAGCAAGAGCCTCCAGGTGGTGCAGCAGCTGCGACTTTTTAGgtatgt---atttacaagaacctaattacgactggtgtttatcagttactgacttcagaac-atttgtagtagctattatagtatcgtgtctgctctttctttgtcaagtgcttctttaagaatagtctttgatggtctttttctctattggctgtcttttcaatgatttttcag
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GTTTATTTCTTACACGAGTTTTGTAGTTTGAGCAAGAGCTTGCAGATGGTCCAGCAGCTTCGGCTTTTTAGgtatgttacatttgaatggtcatcatgacacagcctgttttgctgcttgtcttttaagaactaattttgttaagcatattaaaagaactggtgctgcttc---------------------------------------------------------------------------
upper sequence: AT3G06670.2 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA15G15270.1 (Glycine max), 5'ss of exon 13
GTATATTTCTTGCACGAATTTTGTAGTTTAAGCAAGAGCCTCCAGGTGGTGCAGCAGCTGCGACTTTTTAGgtatgtatttacaagaacctaattacgactggtgtttatcagttactgacttcagaaca-tttgtagtagct--attatagtatc-gtgtctgctctttctttgtcaagtgcttctttaagaatagtctttgatggtctttttctctattggctgtcttttcaatgatttttcag
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GTTCATTTCTTGCACGAGTTTTGTAGTTTAAGCAAGAGCTTACAGATGGTACATCAGCTTCGGTTTTTTCGgtatgtagcatctggag--tagtgaatcttgacagttgacagtgtcaacctgttatgcagtttgtgttctccaaattttagaatcagtttctattgtttgat-------------------------------------------------------------------------
upper sequence: AT3G06670.2 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA09G04260.1 (Glycine max), 5'ss of exon 14
GTATATTTCTTGCACGAATTTTGTAGTTTAAGCAAGAGCCTCCAGGTGGTGCAGCAGCTGCGACTTTTTAGgtatgtatttacaagaacctaattacgactggtgtttatcagttactgacttcagaaca-tttgtagtagctattatagtatcgtgtctgctctttctttgtcaagtgcttctttaagaatagtctttgatggtctttttctctattggctgtcttttcaatgatttttcag
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GTCCGTTTCTTGCATGAGTTTTGTAGTTTAAGCAAGAGCTTACAGATGGTTCAACAGCTTCGGCTTTTTTGgtatgtagcatctggag--tggtgaatcttgacaattgacagtgtcagcctgttatgcagtttgtgttctccaattttttgaatcaattgctattgtttgat----------------------------------------------------------------------
upper sequence: AT3G06670.2 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: Vv05s0077g01200.t01 (Vitis vinifera), 5'ss of exon 14
GTATATTTCTTGCACGAATTTTGTAGTTTAAGCAAGAGCCTCCAGGTGGTGCAGCAGCTGCGACTTTTTAGgtatgtatttacaagaacctaattacgactggtgtttatcagttactgacttcagaacatttgtagtagctattatagtatcgtgtctgctctttctttgtcaagtgcttctttaagaatagtctttgatggtctttttctctattggctgtcttttcaatgatttttcag
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GTATTTTTCTTATATGAGTTTTGTAGTTTAAGCAAGAGCTTGCAGATGGTCCAGCAGCTTCGGCTATTTAGgtatgcaaatacca-aacttaatc--------ttttatgctgttgctggcttaagcgttctctttgaaaataagttataattctgtgcaggttttatttcacattctgtcatcttatatatgttattaaaagttaaagttttcaatgcctatag-----------------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|164230009|gb|ES178537.1|ES178537EST: TGTAGTTTAAGCAAGAGCCTCCAGGTGGTGCAGCAGCTGCGACTTTTTAG GGACCTTATTAATGAAGGCATTTTTCA
genomic: TGTAGTTTAAGCAAGAGCCTCCAGGTGGTGCAGCAGCTGCGACTTTTTAGgtatgtattt ... gatttttcagGGACCTTATTAATGAAGGCATTTTTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATATTTCTTGCACGAATTTTGTAGTTTAAGCAAGAGCCTCCAGGTGGTGCAGCAGCTGCGACTTTTTAGgtatgtatttacaagaacctaattacgactggtgtttatcagttactgacttcagaacatttgtagtagctattatagtatcgtgtctgctctttctttgtcaagtgcttctttaagaatagtctttgatggtctttttctctattggctgtcttttcaatgatttttcag
- - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC