Sequence
atgc intronic sequence ATGC exonic sequenceCGAGTTCAACGCAAGAAAACCTGATGAAATGAATGTATTCCGGGGAGTAAATAAGAACCCTCTCTTCGTAGCAATTGTTGGAGTCACTTTTATACTTCAGgtaagacaataacacaaagccactttaacctttttcctctttcttgagactatgatagtaaaatgcttctggttgaaaaatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G21180.1 |
intron # | 30 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G21180.1 (Arabidopsis thaliana), 5'ss of exon 30
lower sequence: GLYMA08G23760.1 (Glycine max), 5'ss of exon 33
CGAGTTCAACGCAAGAAAACCTGATGAAATGAATGTATTCCGGGGAGTAAATAAGAACCCTCTCTTCGTAGCAATTGTTGGAGTCACTTTTATACTTCAGgtaaga-caataacacaaagccactttaacctttttcctctttcttgagactatgatag--taaaatgcttctggttgaaaaatgcag-------------
|| ||||| || | ||||| |||||||||||||| ||||| ||||| | |||||| || ||||| | |||||||||||| || |||||||||||||| | | | | | |||| || | | || || | || || ||| || || || | | |
TGAATTCAATGCTCGGAAACCCGATGAAATGAATGTTTTCCGTGGAGTGACCAAGAACAAACTTTTCGTGGGAATTGTTGGAGTGACCTTTATACTTCAGgtgaattctctgttttattgtgtgcttaattattattattattattagtattagtatttcttaacatttgcttgctttctcactctacttcaaattgttag
upper sequence: AT3G21180.1 (Arabidopsis thaliana), 5'ss of exon 30
lower sequence: GLYMA13G44990.1 (Glycine max), 5'ss of exon 32
CGAGTTCAACGCAAGAAAACCTGATGAAATGAATGTATTCCGGGGAGTAAATAAGAACCCTCTCTTCGTAGCAATTGTTGGAGTCACTTTTATACTTCAGgtaagacaataacacaaagccactttaacctttttcctctttcttgagactatgatagtaaaatgcttctggttgaaaaatgcag---------------------------
||||||||| || ||||||| || || |||||||| ||||||||||| | |||||||| ||||||| | | |||||||||| | || || | |||||||| || | || | | || | ||| || | | | | | | | | | | | | ||| | | || || |
CGAGTTCAATGCTCGAAAACCAGAAGAGATGAATGTCTTCCGGGGAGTGACTAAGAACCGTCTCTTCATGGGAATTGTTGGAATGACCTTCGTGCTTCAGgtgtgaatagaataaataggcttgttag--ttatacttactacgtattattcttaattttgagtgcatttaatttaatttctgactgactctagctacgtcaaattgtttag
upper sequence: AT3G21180.1 (Arabidopsis thaliana), 5'ss of exon 30
lower sequence: GLYMA15G00340.1 (Glycine max), 5'ss of exon 32
CGAGTTCAACGCAAGAAAACCTGATGAAATGAATGTATTCCGGGGAGTAAATAAGAACCCTCTCTTCGTAGCAATTGTTGGAGTCACTTTTATACTTCAGgtaagacaataacacaaagccactttaacctttttcctctttcttgagactatgatagtaaaatgcttctggttgaaaaatgcag
||||||||| || ||||||| || || |||||||| ||||||||||| | ||||||| ||||||| | | |||||||||| | || || | |||||||| | | || | | | | | | ||| | || | | ||| | ||| | || ||| | ||
CGAGTTCAATGCTCGAAAACCAGAAGAGATGAATGTCTTCCGGGGAGTGACTAAGAACGGTCTCTTCATGGGAATTGTTGGAATGACCTTCGTGCTTCAGgtgaatgagtatta---atttattcttaattttgagtgcattt---aatttctgactgactctggctac--gtcaaaatgtttagMapped 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|86084426|gb|DR380185.1|DR380185EST: ATAAGAACCCTCTCTTCGTAGCAATTGTTGGAGTCACTTTTATACTTCAG ATCATCATCGTTACTTTCCTCGGAAAGTTTGCTCACACCGTTAGACTGGGA
genomic: ATAAGAACCCTCTCTTCGTAGCAATTGTTGGAGTCACTTTTATACTTCAGgtaagacaat ... aaaaatgcagATCATCATCGTTACTTTCCTCGGAAAGTTTGCTCACACCGTTAGACTGGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGAGTTCAACGCAAGAAAACCTGATGAAATGAATGTATTCCGGGGAGTAAATAAGAACCCTCTCTTCGTAGCAATTGTTGGAGTCACTTTTATACTTCAGgtaagacaataacacaaagccactttaacctttttcctctttcttgagactatgatagtaaaatgcttctggttgaaaaatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG