Sequence
atgc intronic sequence ATGC exonic sequenceGTGATAAGAGTGTTACCTTACAGTGCGGTCCAGCTTTTGGCTTATGAGAGTTACAAGgtgagtttgtgtcatctatagcttattggctattgggattatgtactaaagagaaatagaaatgattgttataaaattctgtagctacttgtcctagaaa...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G51870.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G51870.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G08120.1 (Glycine max), 5'ss of exon 4
GTGATAAGAGTGTTACCTTACAGTGCGGTCCAGCTTTTGGCTTATGAGAGTTACAAGgtgagtttgtgtcatctatagcttattggctattgggattatgtactaaagagaaatagaaatgattgttataaaattctgtagctacttgtcctagaaa
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GTGATTCGGGTTATACCTTACAGTGCTGTCCAGCTTTTTGCTTATGAAATTTACAAGgttagctgtta--aactttctttcatgaatttctt------ttccccaatattgcatgttcatgactaagttatacttttggatttatag----------
upper sequence: AT3G51870.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G42950.1 (Glycine max), 5'ss of exon 5
GTGATAAGAGTGTTACCTTACAGTGCGGTCCAGCTTTTGGCTTATGAGAGTTACAAGgtgagtttgtgtcatctatagcttattggctattgggattatgtactaaagagaaatagaaatgattgttataaaattctgtagctacttgtcctagaaa
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GTGATCCGTGTTGTACCTTACAGTGCTGTCCAGCTTTTTGCTTATGAGATTTATAAGgttaccccaaat----tatag---------tatcagaa----gttctaatggcaaatattacctgttcatgtctgaatatcta-cttttggattcacag-
upper sequence: AT3G51870.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G18140.1 (Glycine max), 5'ss of exon 4
GTGATAAGAGTGTTACCTTACAGTGCGGTCCAGCTTTTGGCTTATGAGAGTTACAAGgtgagtttgtgtcatctatagcttattggctattgggattatgtactaaagagaaatagaaatgattgttataaaattctgtagctacttgtcctagaaa
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GTGATTCGAGTTGTACCTTACAGTGCTGTCCAGCTTTTTGCTTATGAAATTTATAAGgtta---------acccctaa-ttattg--tatcagaa----gttctaatagcaaatattacctgttcatgtctgaatatctactttttgaactcacag-
upper sequence: AT3G51870.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv08s0007g02230.t01 (Vitis vinifera), 5'ss of exon 4
GTGATAAGAGTGTTACCTTACAGTGCGGTCCAGCTTTTGGCTTATGAGAGTTACAAGgtga-gtttgtgtcatctatagcttattggctattgggattatgtactaaagagaaatagaaatgattgttataaaattctgtagctacttgtcctagaaa-----------
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GTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACTTACAAGgtaatggtggcgccatcttta----agcatcatttagcatgttgttatatggatctcaatgattagtgtttgagacattctg--attttttgttttacacatgaatttctag
upper sequence: AT3G51870.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S52_69V6.2 (Physcomitrella patens), 5'ss of exon 6
GTGATAAGAGTGTTACCTTACAGTGCGGTCCAGCTTTTGGCTTATGAGAGTTACAAGgtgagtttgtgtcatctatagctt--attggctattgggatt-----atgtactaaagagaaatagaaat----gattgttataa-aattctgtagctacttgtcctagaaa------------------------------------------
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GTTGTCCGTGTCATACCTTACAGTGCGGTGCAACTTTTTGCTTATGAGGTTTACAAGgtaacatt-cctcattgattaccttgattatctggaagcagtcgggcgtgtcttgggtgggtttttgtctcgcagattactgaagtgatcatgtgccagtctgtgttgatagatgtatttctgatatccagtatgcggtgtctttgggtcccagMapped 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|19877032|gb|AU237863.1|AU237863EST: GAGTGTTACCTTACAGTGCGGTCCAGCTTTTGGCTTATGAGAGTTACAAG AACTTGTTCAAAGGTAAAGATGATCAGCTCTCAGTAATCGGAAGACTTGCA
genomic: GAGTGTTACCTTACAGTGCGGTCCAGCTTTTGGCTTATGAGAGTTACAAGgtgagtttgt ... ttgtattcagAACTTGTTCAAAGGTAAAGATGATCAGCTCTCAGTAATCGGAAGACTTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGATAAGAGTGTTACCTTACAGTGCGGTCCAGCTTTTGGCTTATGAGAGTTACAAGgtgagtttgtgtcatctatagcttattggctattgggattatgtactaaagagaaatagaaatgattgttataaaattctgtagctacttgtcctagaaa
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