Sequence
atgc intronic sequence ATGC exonic sequenceATGACCCCAATAATGATCCAAATGCTACTGGAGATCCATACAAGACATTGTTCGTTTCAAGACTTgtaagctgtgtttctttttttcttactgttgaatgacttttgttagacatctgagttatgttgtgcttaactttggtctgttcttgtcttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G50670.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G50670.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os10g02630.1 (Oryza sativa), 5'ss of exon 5
ATGACCCCAATAATGATCCAAATGCTACTGGAGATCCATACAAGACATTGTTCGTTTCAAGACTTgtaagctgtgtttctttttttcttactgttgaatgacttttg-ttagacatctga-gttatgtt-gtgcttaactttggtctgttcttgtcttgcag------
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ATGACCCACAGAGTGACCCCAATGCCACTGGAGATCCATACAAAACACTCTTTGTTGCAAGACTTgtaagtt----tttttgttgcatcattcacaaattattttgaactacatagttggtattatttttgtatgttacttcctattgactccagcaaacgtttacag
upper sequence: AT3G50670.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G113592_T03 (Zea mays), 5'ss of exon 5
ATGACCCCAATAATGATCCAAATGCTACTGGAGATCCATACAAGACATTGTTCGTTTCAAGACTTgtaagctgtgtttctt--------------tttttcttactgttgaatgacttttgttagacatctga-gttatgttgtgctt----aactttggt--ctgttcttgtc----ttgcag
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ATGACCCACAAAGTGACCCCAATGCTACTGGAGATCCATACAAAACACTCTTTGTTGCTAGACTTgtaagtaattttgcctgaaattattggcagtttggcacattccttagtccttactgatgagaatttgatggcaagttatctttgtaaaaccaagctaattggctttgccattgttgcagMapped 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|164227264|gb|EL970919.1|EL970919EST: AAGACATTGTTCGTTTCAAGACTT AACTACGAATCCTCAGAGAATAAGATTAAAAGGGA
genomic: AAGACATTGTTCGTTTCAAGACTTgtaagctgtg ... tgtcttgcagAACTACGAATCCTCAGAGAGTAAGATTAAAAGGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGACCCCAATAATGATCCAAATGCTACTGGAGATCCATACAAGACATTGTTCGTTTCAAGACTTgtaagctgtgtttctttttttcttactgttgaatgacttttgttagacatctgagttatgttgtgcttaactttggtctgttcttgtcttgcag
- - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - GAGATC