Sequence
atgc intronic sequence ATGC exonic sequenceACTCGAAAAGGGATCCTGAAGAGCGGATTATTCCTCGCAGTGTAGATGCTGATGATTCTGATGTTGATATCAAAAGTGACGATGATAGgtaccttttcttcatctcttccattcttttcttcttctttgcagttttttatatgttgtgctttaaatttggctaagactgtcaaggttgggggctgata...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G13200.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G13200.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G15050.2 (Glycine max), 5'ss of exon 3
ACTCGAAAAGGGATCCTGAAGAGCGGATTATTCCTCGCAGTGTAGATGCTGATGATTCTGATGTTGATATCAAAAGTGACGATGATAGgtaccttttcttcatctcttccattcttttcttcttctttgcagttttttatatgttgtgctttaaatttggctaagactg--tcaaggttgggggctgata
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GATCGAAGAGAGAAATGGAAGATCACATTGTTCCACGTAGTGTTGATGCAGATGATTCTGATGTTGAAGTCAAAAGTGATGATGACAGgt--tgataatttggcatgaactttatgtttaactctatcaaatgtttatttaatgtatagttcgtatatacatgcaattgaattgaactcaatattatata
upper sequence: AT3G13200.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G04620.1 (Glycine max), 5'ss of exon 4
ACTCGAAAAGGGATCCTGAAGAGCGGATTATTCCTCGCAGTGTAGATGCTGATGATTCTGATGTTGATATCAAAAGTGACGATGATAGgtaccttttcttcatctcttccattcttttcttcttctttgcagttttttatat-gttgtgctttaaatttggctaagactgtcaa--ggttgggggctgata
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GTTCCAAGAGAGACATTGAAGATCGCATTGTTGCTCGTAGTGTTGATGCAGATGATTCTGACGTTGAAGTCAAAAGTGATGATGACAGgtttataattttccaatttggcatgaactttatgtt--taactgtctcaaatgttaatttgatgtatagttcgtatacacatgcaattgaattgaactcaat-
upper sequence: AT3G13200.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv19s0015g00980.t01 (Vitis vinifera), 5'ss of exon 4
ACTCGAAAAGGGATCCTGAAGAGCGGATTATTCCTCGCAGTGTAGATGCTGATGATTCTGATGTTGATATCAAAAGTGACGATGATAGgtaccttttcttcatctcttccattcttttcttct--tctttgcagttttttatatgttgtgctttaaatttggctaagactgtcaaggttgggggctgata
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GGGTAAAGAGGGATGCTGACGATCGAATCGTTCCGCGGAGTGTAGATGCTGATGATTCTGATATTGAAGTCAAAAGTGATGAGAGgtattactctttgtaaatatattggaattgaacatgccaaccctaacaattagttatacgggtggttattttgatggttaattatatgaaatcaagcatc-----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|164041859|gb|ES148039.1|ES148039EST: ATGATTCTGATGTTGATATCAAAAGTGACGATGATAG TGATGACGAAAGTGACGA
genomic: ATGATTCTGATGTTGATATCAAAAGTGACGATGATAGgtaccttttc ... tctttgttagTGATGACGAAAGTGACGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTCGAAAAGGGATCCTGAAGAGCGGATTATTCCTCGCAGTGTAGATGCTGATGATTCTGATGTTGATATCAAAAGTGACGATGATAGgtaccttttcttcatctcttccattcttttcttcttctttgcagttttttatatgttgtgctttaaatttggctaagactgtcaaggttgggggctgata
- - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttcttct