Sequence
atgc intronic sequence ATGC exonic sequenceCTTTATTGAATACTCAGTGCCCGAAAAAATTGGAGCTGCGATGGCAAACTGAAGTCACTTCTAGCGTTTATGCTACACCCTTGATTGCTGATATTAACAGgtttggtttattatctttcccaccaatgtttttatgttgattctgtgttaaaatcttttactcacaatcagatgttttctctctcgaatttgggttaaggcatcatgattaatgagtgctggttccatactttgtgcttaaagccggattttgtttttgttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G09090.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G09090.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA01G27250.1 (Glycine max), 5'ss of exon 2
CTTTATTGAATACTCAGTGCCCGAAAAAATTGGAGCTGCGATGGCAAACTGAAGTCACTTCTAGCGTTTATGCTACACCCTTGATTGCTGATATTAACAGgtttggtttattatctttcccaccaatgtttttatgttgattctgtgttaaaatcttttactcacaatcagatgttttctctctcgaatttgggttaaggcatcatgattaatgagtgctggttccatactttgtgcttaaagccggattttgtttttgttacag
| | ||||| | |||| || || || |||||||| ||||||||||| ||||| | ||| ||| | ||||| | ||||||||||||||||||||||||| ||| |||| | || |||| ||||| |||||| | ||| | | |||| | | | | | || |
CACTTGTGAATTCGAAGTGTCCCAAGAATTTGGAGCTCCGATGGCAAACAGAAGTTAGTTCCAGCATCTATGCAAACCCCTTGATTGCTGATATTAACAGgta-agttgtttatgtgctt------tgctttttgagtgatt-tgtgtttgtgtaattttcattttgttgaatgtctgcctttttgttttgcag-----------------------------------------------------------------------
upper sequence: AT3G09090.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA03G14690.1 (Glycine max), 5'ss of exon 2
CTTTATTGAATACTCAGTGCCCGAAAAAATTGGAGCTGCGATGGCAAACTGAAGTCACTTCTAGCGTTTATGCTACACCCTTGATTGCTGATATTAACAGgtttggtttattatctttcccaccaatgtttttatgttgattctgtgttaaaatcttttactcacaatcagatgttttctctctcgaatttgggttaaggcatcatgattaatgagtgctggttccatactttgtgcttaaagccggattttgtttttgttacag
| | ||||| | ||||||| || || |||||||| |||||||||| ||||| | ||| ||| | ||||| | ||||||||||||||||||||||||| | |||| | | | | || ||| |||| | | || | |||| | | || | |||| | | |
CACTTGTGAATTCAAAGTGCCCCAAGAATTTGGAGCTCAGATGGCAAACAGAAGTTAGTTCCAGCATCTATGCAAATCCCTTGATTGCTGATATTAACAGgtattgtttgtgctttgctttttgagtgattt-gtgtttgtgtgattttca----ttttgttgaatgtctgcctttttgttttgcag------------------------------------------------------------------------------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|152035986|gb|AU236941.2|AU236941EST: GAAGTCACTTCTAGCGTTTATGCTACACCCTTGATTGCTGATATTAACAG TGATGGAAAGCTTGACATTGTTGTTCCATCTTTTGTTCATTACCTCGAAGT
genomic: GAAGTCACTTCTAGCGTTTATGCTACACCCTTGATTGCTGATATTAACAGgtttggttta ... tttgttacagTGATGGAAAGCTTGACATTGTTGTTCCATCTTTTGTTCATTACCTCGAAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTTATTGAATACTCAGTGCCCGAAAAAATTGGAGCTGCGATGGCAAACTGAAGTCACTTCTAGCGTTTATGCTACACCCTTGATTGCTGATATTAACAGgtttggtttattatctttcccaccaatgtttttatgttgattctgtgttaaaatcttttactcacaatcagatgttttctctctcgaatttgggttaaggcatcatgattaatgagtgctggttccatactttgtgcttaaagccggattttgtttttgttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT