Sequence
atgc intronic sequence ATGC exonic sequenceGTTTCTGAGGGCAAGGAAGTTTGATCTTGAGAAAGCAAAGCAAATGTGGACTGATATGATCCATTGGAGGAAAGAGTTTGGTGTTGACACAATCATGGAGgtcctaaacattttaagatcatcttctttttcttctcctttaattaaagtctgatcctttttacttcttctttcaaaag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G21540.3 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G21540.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os10g03400.2 (Oryza sativa), 5'ss of exon 3
GTTTCTGAGGGCAAGGAAGTTTGATCTTGAGAAAGCAAAGCAAATGTGGACTGATATGATCCATTGGAGGAAAGAGTTTGGTGTTGACACAATCATGGAGgtc-ctaaacattttaagatcatcttctttttcttctcctttaattaaag-tctgatcctttttactt--cttctttcaaaag----------------------------------
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GTTTTTGAAGGCAAGAAAGTTTGATGTTGAGAAGGCAAAGCAAATGTGGGCTGACATGTTGCGGTGGAGAAAGGAATTTGGTGCAGATACCATTCTTGAGgtaattgcatctatcaaataggttaaggttaaactatatttggactaatccttttatggttgatacatacctttgtttataagcagttgacacatttttcatcaaattctatctcag
upper sequence: AT2G21540.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os02g24430.2 (Oryza sativa), 5'ss of exon 4
GTTTCTGAGGGCAAGGAAGTTTGATCTTGAGAAAGCAAAGCAAATGTGGACTGATATGATCCATTGGAGGAAAGAGTTTGGTGTTGACACAATCATGGAGgtcctaaac--attttaagatcatcttctttttcttctcctttaattaaagtctgatccttttt-------------acttcttctttcaaaag---------
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GTTTTTGAAGGCAAGAAAGTTTGATGTGGAGAAGGCAAAGCAAATGTGGGTTGATATGCTGCAGTGGAGAAAGGAATTCGCTGCAGATACCATTCTTGAGgtaattgcttaagattaaaatatatttggactaatccttctatggttgacacatacccttgtttataagcagttgacacatttttcttcaaatcctatctcag
upper sequence: AT2G21540.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G162461_T01 (Zea mays), 5'ss of exon 4
GTTTCTGAGGGCAAGGAAGTTTGATCTTGAGAAAGCAAAGCAAATGTGGACTGATATGATCCATTGGAGGAAAGAGTTTGGTGTTGACACAATCATGGAGgt---cctaaacattttaag-----atcatcttctttttcttctc------ctttaattaaagtctg-atcctttttacttcttctttcaaaag------
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ATTTCTCAAGGCAAGAAAGTTTGATATCGAGAAGGCAAAGCAAATGTGGTCTGATATGCTGAAGTGGAGAAAGGAGTTCGGTGCAGATACCATTCTCGAGgtaactataatcagatcgagtatttgtaatcatatattactttctaaaacgtcttagataaaatatatatttgtttaactttaaattttggaaaattggaMapped 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|125046341|gb|EL118610.1|EL118610EST: TTGACACAATCATGGAG GACTTTGATTTCAAGGAGATTGATGAAGTCCTCAAGTACTACCCTCAAGGT
genomic: TTGACACAATCATGGAGgtcctaaaca ... ctttcaaaagGACTTTGATTTCAAGGAGATTGATGAAGTCCTCAAGTACTACCCTCAAGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTCTGAGGGCAAGGAAGTTTGATCTTGAGAAAGCAAAGCAAATGTGGACTGATATGATCCATTGGAGGAAAGAGTTTGGTGTTGACACAATCATGGAGgtcctaaacattttaagatcatcttctttttcttctcctttaattaaagtctgatcctttttacttcttctttcaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA