Sequence
atgc intronic sequence ATGC exonic sequenceGGAAGTGAAGCTAGAGCAGAAAAGGTTGAAGGAGAAAATGAAGGAATTCAATAAAAAGGAAGCCAAATTTTATGGAAACATGTTTGCGAAACTAAGTgtaagtatctcaatggtttgatcatatgttataagtagatgatagtagttagtgggaatatgatgataaccaaatcttgtattggtgggaacttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G25230.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G25230.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 12
GGAAGTGAAGCTAGAGCAGAAAAGGTTGAAGGAGAAAATGAAGGAATTCAATAAAAAGGAAGCCAAATTTTATGGAAACATGTTTGCGAAACTAAGT-
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---------------------AACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttctaatctatgcattcttgatttgttattatattgcatataagaacagtggtgcattgttagaaggataaaaaattgggtagtaagaaaataaaaataaaattagcaactcaaacattgatatgtatgaacattttcattaatgaatggccctaatggggttttgtgtttgtgatatgcag
upper sequence: AT3G25230.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv00s0958g00020.t01 (Vitis vinifera), 5'ss of exon 8
GGAAGTGAAGCTAGAGCAGAAAAGGTTGAAGGAGAAAATGAAGGAATTCAATAAAAAGGAAGCCAAATTTTATGGAAACATGTTTGCGAAACTAAGT-
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---------------------AACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttctaatttatgcattcttgatttgttattatattgcatataagaatagcggtgcatcgttagaaggataaaaaaattgggtagtaagaaaataaaaataaaattagcaactcaaacattgatatgtatgaacatttttattaatgaatggccctaatggggttttttgtttgtgatatgcagMapped 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|164192448|gb|ES030428.1|ES030428EST: AAAAGGAAGCCAAA-TTTATGGAAACATGTTTGCGAAACTAAGT AAGGAATAATCAAAAGATGGAGAGGCAATGAGCACCTGAGGT
genomic: AAAAGGAAGCCAAATTTTATGGAAACATGTTTGCGAAACTAAGTgtaagtatct ... gaacttgcagAAGGAATAATCAAAAGATGGAGAGGCAATGAGCACCTGAGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAAGTGAAGCTAGAGCAGAAAAGGTTGAAGGAGAAAATGAAGGAATTCAATAAAAAGGAAGCCAAATTTTATGGAAACATGTTTGCGAAACTAAGTgtaagtatctcaatggtttgatcatatgttataagtagatgatagtagttagtgggaatatgatgataaccaaatcttgtattggtgggaacttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA