Sequence
atgc intronic sequence ATGC exonic sequenceATACTACAATGCCCCCAACAAAGCGATTTCGTGACATGGAACAGCTCTCTGGAGGAGAGAAAACAGTTGCGGCCTTGGCGTTGCTCTTCTCCATACATAGgtatcctcaacgacctagatatcccatttgtttcaatgttaaaagtgattttgtaggttcatattgatttatctgtggtgtttagtttcactctttgaaa...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G54670.3 |
intron # | 16 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G54670.3 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA10G04300.1 (Glycine max), 5'ss of exon 17
ATACTACAATGCCCCCAACAAAGCGATTTCGTGACATGGAACAGCTCTCTGGAGGAGAGAAAACAGTTGCGGCCTTGGCGTTGCTCTTCTCCATACATAGgta---------tcctcaacgacctagat-atcccatttgt-ttcaatgttaaaagtgattttgtaggttcatattg---atttatctgtggtgtttagtttcactctttgaaa---------------------------------------------------------------------------
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ACACTGCTATGCCCCCAACAAAGCGCTTCCGTGATATGGAGCAGCTATCTGGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttgtttgtactactacttggattagaacaagaatattttataactactctgaatttgtgttttaataacaaaaattcatctaagcaatatactgacacatctcacataagcctaaaactattttgctgatatcttatcttcttgttccattaatatggttccctacttacttcttgtttcag
upper sequence: AT3G54670.3 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA13G18470.1 (Glycine max), 5'ss of exon 17
ATACTACAATGCCCCCAACAAAGCGATTTCGTGACATGGAACAGCTCTCTGGAGGAGAGAAAACAGTTGCGGCCTTGGCGTTGCTCTTCTCCATACATAGgta----tcctcaacgacctagatatccca----tttgtttcaatgttaaaagtgattttgtaggttcatattgatttatctgtggtgtttagtttcactc---tttgaaa-----------------------------------------------------------------
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ACACTGCTATGCCCCCAACAAAGCGCTTCCGTGATATGGAGCAGCTATCTGGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgtttgtactaatattagaacaagaatattttgtaactactctgaatttgtgtttaataacacaaattcatctaa-tatactgacacatctcacataagcctaaaactattttgctgatatctgatcttcatgttccattaacatggttccctacttgcttcttgtttcag
upper sequence: AT3G54670.3 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: Vv07s0005g03440.t01 (Vitis vinifera), 5'ss of exon 11
ATACTACAATGCCCCCAACAAAGCGATTTCGTGACATGGAACAGCTCTCTGGAGGAGAGAAAACAGTTGCGGCCTTGGCGTTGCTCTTCTCCATACATAGgtatcctcaacgacctagatatcccatttgtttcaatgtt----aaaagtgattttgtaggttcat-attgatttatct-gtggtgtttagtttcactctttgaaa
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ACACTGCTATGCCCCCAACAAAGCGCTTCCGTGATATGGAACAGCTGTCTGGTGGTGAGAAAACTGTTGCAGCACTTGCATTGCTCTTCTCTATCCATAGgtatg-tcaaggaatacaagaaacattttttctgtatgttttggacaaaccttactctggatgcaggaataacatgtcttgaaatattttgtttaatttct-----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|125075822|gb|EL139221.1|EL139221EST: GGAGGAGAGAAAACAGTTGCGGCCTTGGCGTTGCTCTTCTCCATACATAG CTATAGGCCTTCACCCTTTTTCATACTTGATGAAGTGGATG
genomic: GGAGGAGAGAAAACAGTTGCGGCCTTGGCGTTGCTCTTCTCCATACATAGgtatcctcaa ... catttttcagCTATAGGCCTTCACCCTTTTTCATACTTGATGAAGTGGATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATACTACAATGCCCCCAACAAAGCGATTTCGTGACATGGAACAGCTCTCTGGAGGAGAGAAAACAGTTGCGGCCTTGGCGTTGCTCTTCTCCATACATAGgtatcctcaacgacctagatatcccatttgtttcaatgttaaaagtgattttgtaggttcatattgatttatctgtggtgtttagtttcactctttgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcactc