Sequence
atgc intronic sequence ATGC exonic sequenceTTTCATATGTTAAAAAACTAAATATTCCAAGTGGAGTGGTTGGGGCTTGTCGACTTGATTTGGCATATGAGCATTTCAAGgtatgccttgattggaactagtatcttgttatatactacatttgaattgtacgagaggctgagttttaattgtttcattttcctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G62650.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G62650.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g12550.1 (Oryza sativa), 5'ss of exon 3
TTTCATATGTTAAAAAACTAAATATTCCAAGTGGAGTGGTTGGGGCTTGTCGACTTGATTTGGCATATGAGCATTTCAAGgtatgcct--tgattggaactagtatcttgttatatacta-catttgaattgtacgagaggctgagttttaattgtttcattttcctcag------------
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TATCTTATGTTAAACGCCTAAATGTGCCAAGTGGTATGGTGGGGGCTTGTCGCCTTGATGTGGCATACGAGCATTTCAAGgtaggtatgatgattttt-ttaatatgaggttttgcctgaatatttatgttattttttgtagtatgtattt-ttactctggatcttgtagtatatttattta
upper sequence: AT5G62650.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G097959_T01 (Zea mays), 5'ss of exon 3
TTTCATATGTTAAAAAACTAAATATTCCAAGTGGAGTGGTTGGGGCTTGTCGACTTGATTTGGCATATGAGCATTTCAAGgtatgccttgattggaactagtatcttgttatatactacatttgaattgtacgagaggctgagtttta---attgtttcattttcctcag------------
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TATCCTATGTAAAGCGACTAAATGTGCCAAGCGGCATGGTGGGGGCTTGTCGCCTTGATGTAGCATATGAACATTTCAAGgttagttgtggcagtttttcaaggaaaataattt--tattttcattttttatgataagtcagttctgatatattttttagtttctcttgattttcttttagc
upper sequence: AT5G62650.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G24090.1 (Glycine max), 5'ss of exon 3
TTTCATATGTTAAAAAACTAAATATTCCAAGTGGAGTGGTTGGGGCTTGTCGACTTGATTTGGCATATGAGCATTTCAAGgtatgcct--tgattggaactagtatcttgttatatactacatttgaatt--gtacgagaggctgag-ttttaattgttt---cattttcctcag------
|||||||||| || || || ||||||||||| || ||||| || || ||||| ||||| | |||||||| |||||||||||| || || || | || || || || | ||| || ||| | || || | || || || | | |
TTTCATATGTCAAGAAGCTGAATATTCCAAGCGGTGTGGTGGGTGCCTGTCGTCTTGACCTAGCATATGAACATTTCAAGgtaccactgacattttcaattgctaatttaa-atgtagtcgtgctgatttaagtatgctcattgaaggttctgtgtgctttgatatatgatttggttgtttMapped 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|164016322|gb|EL992985.1|EL992985EST: GTGGAGTGGTTGGGGCTTGTCGACTTGATTTGGCATATGAGCATTTCAAG GAGAAACCTCACTTATTTCAGTTTGTTCCAAATGA
genomic: GTGGAGTGGTTGGGGCTTGTCGACTTGATTTGGCATATGAGCATTTCAAGgtatgccttg ... ttttcctcagGAGAAACCTCACTTATTTCAGTTTGTTCCAAATGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTCATATGTTAAAAAACTAAATATTCCAAGTGGAGTGGTTGGGGCTTGTCGACTTGATTTGGCATATGAGCATTTCAAGgtatgccttgattggaactagtatcttgttatatactacatttgaattgtacgagaggctgagttttaattgtttcattttcctcag
- - - - - - - - - - - - - - - GTGGAG