Sequence
atgc intronic sequence ATGC exonic sequenceTGGTTCTAATGGATCACCAAATGGAGATGGCATACAAGCAATCGGTAGAAGCTCTCACAAAATGATAGACGCCGTAATGCAATCTGCTGCAAGAGGAAAGgttgatcaacgtctttaacatatgattgatacatcttccagagagtactattaacatttcttggtgctttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G13300.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os09g33600.1 (Oryza sativa), 5'ss of exon 11
TGGTTCTAATGGATCACCAAATGGAGATGGCATACAAGCAATCGGTAGAAGCTCTCACAAAATGATAGACGCCGTAATGCAATCTGCTGCAAGAGGAAAGgttgatcaacgtctttaacatatga-ttgatacatcttccagagagtactatta-----acattt---cttggtgctttcag-----------------------------
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TGGCATAAACGATTCCCCTAATGGTGATGGAATACAAGCAATTGGTAGAAGTTCACACAAAATGATTGAGGCGGTGATGCAATCAGCTTCAAAGGGCAAGgtagcacattctggttgtcctggaagttaatactcttgcttatgtctacgctcaggctcacatttcagcatggaaattcatgtcatattttaaagtgagtacttatttcag
upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA18G51810.1 (Glycine max), 5'ss of exon 11
TGGTTCTAATGGATCACCAAATGGAGATGGCATACAAGCAATCGGTAGAAGCTCTCACAAAATGATAGACGCCGTAATGCAATCTGCTGCAAGAGGAAAGgttga-tcaacgtctttaacatat-gattga-------------tacatcttccagagagt--actattaacatttcttggtgctttcag--------
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TGGTTCTAATGGGTCTCCTAATGGAGATGGTATACAAGCCATTGGTAGAAGTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgttgaattgaggcctggaaattgttgattgaagttattaacatttactttctcctagtggttgacttttataatattcttgtcttttcatcattttag
upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G28890.2 (Glycine max), 5'ss of exon 11
TGGTTCTAATGGATCACCAAATGGAGATGGCATACAAGCAATCGGTAGAAGCTCTCACAAAATGATAGACGCCGTAATGCAATCTGCTGCAAGAGGAAAGgttga-tcaacgtctttaacatat-gattga-------------tacatcttccagagagt--actattaacatttcttggtgctttcag--------
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TGGTTCTAATGGGTCTCCTAATGGAGATGGTATACAAGCCATTGGTAGAAGTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgttgaattgaggcctggaaattgttgattgaagttattaacaattactttctcccagtggttgacttttataactttcttgtcttatcatcattttag
upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv01s0150g00030.t01 (Vitis vinifera), 5'ss of exon 11
TGGTTCTAATGGATCACCAAATGGAGATGGCATACAAGCAATCGGTAGAAGCTCTCACAAAATGATAGACGCCGTAATGCAATCTGCTGCAAGAGGAAAGgttgatcaacgtctttaacatatgattgatacatcttccagagagtactattaacatttctt----ggtgctttcag--------------------------------------------------------------------------------
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TGGTTCTAATGGGTCTCCTAATGGAGACGGTATACAAGCCATTGGCAGAAGCTCACATAAAATGATAGAGGCTGTGATGCAATCTGCAGCCAAGGGAAAGgtctgaagaagcttataagttattaagga-acttcttttatagatacttatcaaaaaaaaaaaaaaggaacttcttttatagatcctctttattttcttgatgttccttgtatttctagttgttttttgtttccgtgtctgaataacaatatttcagMapped 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|164215024|gb|ES145835.1|ES145835EST: CAATCTGCTGCAAGAGGAAAG GTGCAAACAATAAGGCAAGGTTATCTCTCTAAACGATCTTCAAACCTGAGA
genomic: CAATCTGCTGCAAGAGGAAAGgttgatcaac ... gtgctttcagGTGCAAACAATAAGGCAAGGTTATCTCTCTAAACGATCTTCAAACCTGAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTTCTAATGGATCACCAAATGGAGATGGCATACAAGCAATCGGTAGAAGCTCTCACAAAATGATAGACGCCGTAATGCAATCTGCTGCAAGAGGAAAGgttgatcaacgtctttaacatatgattgatacatcttccagagagtactattaacatttcttggtgctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA