Sequence
atgc intronic sequence ATGC exonic sequenceGTTGGAGCTCAAACTGAGACAGAGCTCAAAGAAAAGAAGCTGAGAGTGGAAGATGCTCTTAATGCTACAAAGgtgattttctttatccagctgatggggttataggtatcgtgctactcatgtatatcttaattatatgacctcattgagtttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G13470.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA08G18760.1 (Glycine max), 5'ss of exon 9
GTTGGAGCTCAAACTGAGACAGAGCTCAAAGAAAAGAAGCTGAGAGTGGAAGATGCTCTTAATGCTACAAAGgtgattttctttatccagctgatggggttataggtatcgtgctactcatgtatatcttaattatatgacctcattgagtttcag
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GTTGGCGCACAAACTGAGACAGAGCTCAAGGAAAAGAAATTGAGAGTTGAAGACGCTCTTAATGCTACAAAGgtgtccttttctttccca-----aagtttttagattttttgggattc-----tgtctgtaagctaatagtttgttgactttcag
upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA15G40110.1 (Glycine max), 5'ss of exon 9
GTTGGAGCTCAAACTGAGACAGAGCTCAAAGAAAAGAAGCTGAGAGTGGAAGATGCTCTTAATGCTACAAAGgtgattttctttatccagctgatggggttataggtatcgtgctactcatgtatatcttaattatatgacctcattgagtttcag
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GTTGGTGCACAAACTGAGACTGAGCTCAAGGAAAAGAAATTGAGAGTTGAAGATGCTCTTAATGCTACAAAGgtatccttttctttccca-----aagtttttagatttcttttgaattctgtttctgtaagcta-atagttt-gttgactttcag
upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 10
GTTGGAGCTCAAACTGAGACAGAGCTCAAAGAAAAGAAGCTGAGAGTGGAAGATGCTCTTAATGCTACAAAGgtgattttctttatccagctg----atggggttataggtatcgtgctactcatgtat-atcttaattatatgacctcattgagtttcag---------------------
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GTTGGAGCACAAACTGAGACAGAGCTTAAAGAAAAGAAACTGAGAGTAGAAGACGCTCTCAATGCAACGAAGgtaatttctttcatgaaattatggcactgaattgctagt-tgctaatattcaagagtgatggcacagccagaacagtattaagtagtatggcattttcaatgattttcag
upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: EFJ32217 (Selaginella moellendorffii), 5'ss of exon 9
GTTGGAGCTCAAACTGAGACAGAGCTCAAAGAAAAGAAGCTGAGAGTGGAAGATGCTCTTAATGCTACAAAGgtgattttc---tttatccagctgatggggttataggtatcgtgctactcatgtatatcttaattatatgacctcattgagtttcag
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GTGGGAGCTCAAACGGAAACCGAGCTGAAAGAGAAGAAGCTTAGAGTGGAGGACGCTCTAAATGCAACAAAGgtaatataccggtcttgtcacccgttttttctgcaatt-cctcgcttttcgcag---------------------------------
upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: EFJ36935 (Selaginella moellendorffii), 5'ss of exon 9
GTTGGAGCTCAAACTGAGACAGAGCTCAAAGAAAAGAAGCTGAGAGTGGAAGATGCTCTTAATGCTACAAAGgtgattttctttatccagctgatggggttatagg-tatcgtgctactcatgtatatcttaattatatgacctcattgagtttcag
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GTTGGTGCACAAACTGAGACAGAACTAAAAGAAAAGAAGTTAAGAGTGGAAGATGCTTTGAATGCAACGAAGgtaaata-------------gatcggattctggaatattgtggtgtaagtgttta----aattgcag------------------
upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: EFJ33580 (Selaginella moellendorffii), 5'ss of exon 9
GTTGGAGCTCAAACTGAGACAGAGCTCAAAGAAAAGAAGCTGAGAGTGGAAGATGCTCTTAATGCTACAAAGgtgattttctttatccagctgatggggttatagg-tatcgtgctactcatgtatatcttaattatatgacctcattgagtttcag
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GTTGGTGCACAAACTGAGACAGAATTAAAAGAAAAGAAGTTAAGAGTGGAAGATGCTTTGAATGCGACGAAGgtaaata-------------gattggattctggaatattgtggtgtaagtgttta----aattgcag------------------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|124710247|gb|EH801649.1|EH801649EST: CTCTTAATGCTACAAAG GCTGCTGTTGAGGAAGGTATTGTCGTTGGTGGTGGTTGCACTCTGCTCCGG
genomic: CTCTTAATGCTACAAAGgtgattttct ... tgagtttcagGCTGCTGTTGAGGAAGGTATTGTCGTTGGTGGTGGTTGCACTCTGCTCCGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGGAGCTCAAACTGAGACAGAGCTCAAAGAAAAGAAGCTGAGAGTGGAAGATGCTCTTAATGCTACAAAGgtgattttctttatccagctgatggggttataggtatcgtgctactcatgtatatcttaattatatgacctcattgagtttcag
- - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - AAGATG