Sequence
atgc intronic sequence ATGC exonic sequenceGGACAGACTTAATATTTCTAGAGAGAAATACAGACAAACTAGATTAGAACAGTATAAGAATTATGAAAATGTCCCTAATTCTGGAGAATCATCAGAAAAGgtaagggttatatcctctgatcctctatttgtattagtgttcaggttagctcagtcacctaatacatcattttgtatggattcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G13340.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G13340.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os02g48964.1 (Oryza sativa), 5'ss of exon 3
GGACAGACTTAATATTTCTAGAGAGAAATACAGACAAACTAGATTAGAACAGTATAAGAATTATGAAAATGTCCCTAATTCTGGAGAATCATCAGAAAAGgtaagggttatatcctctgatcctctatttgtattagtgttcaggttagc-tcagtcacctaatacatcattttgtatggattcag
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GGAGAAGCTAGCGATCACACGTGATAAATACAGACAGACCAGATTAGATCAGTACAAGAATTATGAGAACATGCCTAATTCTGGAGAAGCAGCCGCAAAGgtgcg-----tccttttgaaagctcactgtgtagaactgtctgtgtttgtgcttgacagttgacac----ttgtgtacag------
upper sequence: AT3G13340.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G109039_T03 (Zea mays), 5'ss of exon 3
-GGACAGACTTAATATTTCTAGAGAGAAATACAGACAAACTAGATTAGAACAGTATAAGAATTATGAAAATGTCCCTAATTCTGGAGAATCATCAGAAAAGgtaagggttatatcctc--tgatcctctatttgtattagtgttcaggttagctcagtcacctaatacatcattttgtatggattcag
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GGAGCAGA-TAAACATAACCCGTAAAAAATACAGACAGTCCAGATTAGAACAGTACAAAAATTATGAGAATGTACCTAACTCTGGAGAAGAAGCTATGAAGgtttgcctcttactcctgttggaagtttggctttgtaaaattttctatccgcatg--tgtttgacacttgccttggaatag------
upper sequence: AT3G13340.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G048045_T01 (Zea mays), 5'ss of exon 3
GGACAGACTTAATATTTCTAGAGAGAAATACAGACAAACTAGATTAGAACAGTATAAGAATTATGAAAATGTCCCTAATTCTGGAGAATCATCAGAAAAGgtaagggttatatcctctgatcctctatttgtattagtgttcaggttagctcagtcacctaatacatcattttgtatggattcag
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GGAGCAGCTAAACATAACCCGTAAAAAATATAGACAGTCCAGATTAGAACAGTACAAAAATTATGAGAATGTACCTAACTCTGGAGAA------GAAGCTATGAAGgtt-tgcctcttactctttttgtaagttaagctttgtaaattttctatccacatgttgttgacaattgtcttggaatagMapped 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|47831951|gb|CK121635.1|CK121635EST: GAATTATGAAAATGTCCCTAATTCTGGAGAATCATCAGAAAAG GTTTGCAAGGTCACACAGAAAGGAGGACTATTTTATGACTTCTGGCGGAAT
genomic: GAATTATGAAAATGTCCCTAATTCTGGAGAATCATCAGAAAAGgtaagggtta ... atggattcagGTTTGCAAGGTCACACAGAAAGGAGGACTATTTTATGACTTCTGGCGGAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGACAGACTTAATATTTCTAGAGAGAAATACAGACAAACTAGATTAGAACAGTATAAGAATTATGAAAATGTCCCTAATTCTGGAGAATCATCAGAAAAGgtaagggttatatcctctgatcctctatttgtattagtgttcaggttagctcagtcacctaatacatcattttgtatggattcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA