Sequence
atgc intronic sequence ATGC exonic sequenceTTCGGGGATCAAGAACTCGCGGCTGCATTTCAATCTTTCGGTATTGTTCTGAGTGCCAAGGTTTTTGTAGACAAAGCCACTGGTGTAAGCAAATGTTTCGgtaagctctcttttgatctagtttttcctcttttaaaactggttcattgtgaaggtagaaagaaagcattcttttgctgttgctgttggttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G03110.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G03110.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os05g30980.1 (Oryza sativa), 5'ss of exon 8
TTCGGGGATCAAGAACTCGCGGCTGCATTTCAATCTTTCGGTATTGTTCTGAGTGCCAAGGTTTTTGTAGACAAAGCCACTGGTGTAAGCAAATGTTTCGgtaagctctcttttgatctagtttttcctcttttaaaactggttcattgtgaaggtagaaagaaagcattcttttgctgttgctg-ttggttgcag
|| || || ||||| || || | ||| ||||| ||| |||| || |||||||| || ||||||||||||||||| |||||| | || ||||| |||||||| | ||| ||| | | | || | || | || || | || || ||| ||| |||| |||||
TTTGGCGACCAAGATCTTGCCGGTGCCTTTCAGGGTTTTGGTAGAGTACTGAGTGCTAAAGTTTTTGTAGACAAAGCAACTGGTCTTAGTAAATGCTTCGgtaa---ttaacttgtcctaactgctaaccatt---gattgtattatcatg---------------ctttgttaactggttcctgattgggtgcag
upper sequence: AT4G03110.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA19G39300.1 (Glycine max), 5'ss of exon 8
TTCGGGGATCAAGAACTCGCGGCTGCATTTCAATCTTTCGGTATTGTTCTGAGTGCCAAGGTTTTTGTAGACAAAGCCACTGGTGTAAGCAAATGTTTCGgtaagctctcttttgatctagtttttcctcttttaaaactggttcattgtgaaggtagaaagaaagcattcttttgctgttgctgttggttgcag
|| || |||||||| || || |||| |||||| | || |||| ||| ||||||| || |||||||| || ||||| |||||||| ||||||||||| |||||||| | || || | | | | | | ||| | || | || || |||| || |
TTTGGAGATCAAGAGCTTGCTACTGCTTTTCAACCATTTGGTAGAGTTTTGAGTGCTAAAGTTTTTGTTGATAAAGCAACTGGTGTTAGCAAATGTTTTGgtaagcttatgctccatttattaatgaatttgatgggttttgtttggagcttgtgtttgatga--gctcgaatttgttgcag-------------
upper sequence: AT4G03110.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA03G36650.2 (Glycine max), 5'ss of exon 8
TTCGGGGATCAAGAACTCGCGGCTGCATTTCAATCTTTCGGTATTGTTCTGAGTGCCAAGGTTTTTGTAGACAAAGCCACTGGTGTAAGCAAATGTTTCGgtaagctctcttttgatctagtttttcctcttttaaaactggttcattgtgaaggtagaaagaaagcattcttttgctgttgctgttggttgcag
|| || |||||||| || || |||| |||||| | || |||| ||| ||||||| || |||||||| || ||||| || ||||| ||||||||||| |||||||| | | || | | || | | |||| |||| || | | | || ||| |||| |
TTTGGAGATCAAGAGCTTGCTACTGCTTTTCAACCATTTGGTAGAGTTTTGAGTGCTAAAGTTTTTGTTGATAAAGCAACCGGTGTTAGCAAATGTTTTGgtaagcttatgctccgtttattaatgacttt-----gatgggttttgtgtggagcttgtgtttgatgatgagcttgaatttgcag----------
upper sequence: AT4G03110.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv07s0104g01150.t01 (Vitis vinifera), 5'ss of exon 8
TTCGGGGATCAAGAACTCGCGGCTGCATTTCAATCTTTCGGTATTGTTCTGAGTGCCAAGGTTTTTGTAGACAAAGCCACTGGTGTAAGCAAATGTTTCGgtaagctctcttttgatctagtttttcctcttttaaaact------ggttcattgtgaaggtagaaagaaagcattcttttgctgttgctgttggttgcag
|| || ||||| ||||| ||| ||| || ||| || |||| || ||||||||||||| ||||| |||||||| ||||||| ||||||||||| |||| ||| || | ||| | | || | | ||||| || | || | || | | |||| | |
TTTGGTGATCATGAACTTGCGCATGCCTTCCAACAATTTGGTAGGGTCTTGAGTGCCAAGGTCTTTGTCGACAAAGCAACTGGTGCTAGCAAATGTTTTGgtatataaattttctattttcctttgaatatgatataggttatggaggttctttcttaatctctaatcagcctctcttttttcag----------------Mapped 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|125324831|gb|EL338911.1|EL338911EST: TTTTTGTAGACAAAGCCACTGGTGTAAGCAAANGTTTCG GTTTTGTTAGCTATGACTCACCAAGCCGCGGCGCAGAACGCTATTGACATG
genomic: TTTTTGTAGACAAAGCCACTGGTGTAAGCAAATGTTTCGgtaagctctc ... ttggttgcagGTTTTGTTAGCTATGACTCAC-AAGCCGCGGCGCAGAACGCTATTGACATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCGGGGATCAAGAACTCGCGGCTGCATTTCAATCTTTCGGTATTGTTCTGAGTGCCAAGGTTTTTGTAGACAAAGCCACTGGTGTAAGCAAATGTTTCGgtaagctctcttttgatctagtttttcctcttttaaaactggttcattgtgaaggtagaaagaaagcattcttttgctgttgctgttggttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA