Sequence
atgc intronic sequence ATGC exonic sequenceAGATCGTTGACCGAGCAGACAACTCTTCTCTCGTCTCCATTGTTAAAAACTTTGATTCTGTTCTTGAAGTTTATGAAGGTTTCTGCAAATTGAAACAGgtatgcttattaaagtggaaaactttcatgctctattctctctgctctagctgatgatggttgaattgcttttaatag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G21590.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G21590.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA04G42390.1 (Glycine max), 5'ss of exon 2
AGATCGTTGACCGAGCAGACAACTCTTCTCTCGTCTCCATTGTTAAAAACTTTGATTCTGTTCTTGAAGTTTATGAAGGTTTCTGCAAATTGAAACAGgtatgcttattaaagtggaaaactttcatgctctattctctc---tgctctagctg---atgatggttgaattg----cttttaatag-------------
| | || | ||| | || || || || | || |||| || ||||| |||||||||| |||||| |||| |||||||| ||||||||||| || || | | | |||| | | | || | || | || || | | ||| || | ||| ||| ||| |
AAACTGTGAATGGAGTCGGGAAATCGTCGCTGCTTTCGCTTGTCAAGGCATTTGACTCTGTTCTTGCTGTTTATAAAGGATTCTGCAATTTGAAACAGgtttgatttctcac-cgtccttctttgtggattttttttttcaatttctataacgggatatgcaaattcacttggtgtcttcaaattggttgggaaatgca
upper sequence: AT1G21590.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA13G09620.1 (Glycine max), 5'ss of exon 2
AGATCGTTGACCGAGCAGACAACTCTTCTCTCGTCTCCATTGTTAAAAACTTTGATTCTGTTCTTGAAGTTTATGAAGGTTTCTGCAAATTGAAACAGgt-atgcttattaaagtg-------gaaaactttcat---gctctattctctctgctcta------gctgatgatggttgaattgcttttaatag-----
| || || | |||| || || || || | | || |||| ||| ||||| ||| |||||| ||||||||||| |||||||| ||||||||||| || || | | | |||| || | ||||||| | | || | | || | || | | |||| |||
AAATTGTGAATCGAGAAGGGAAATCCTCGTTGTTTTCACTTGTCAAAGCATTTGACTCTATTCTTGCCGTTTATGAAGGATTCTGCAATTTGAAACAGgttgtgtttctcagcatctcttactactaactctctctgagtcatattctcaaagttttaaattgtgtcggtggttttttcactattttttatattgcaa
upper sequence: AT1G21590.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv18s0001g01680.t01 (Vitis vinifera), 5'ss of exon 2
AGATCGTTGACCGAGCAGACAACTCTTCTCTCGTCTCCATTGTTAAAAACTTTGATTCTGTTCTTGAAGTTTATGAAGGTTTCTGCAAATTGAAACAGgt--atgcttattaaagtggaaaactttcatgctct---attctctctgctctagctgatgatggttgaattgctt--ttaatag---------------
| || | || | ||| | | | || | ||| | | | |||| | || | ||||||||||||||||| ||||||||||| || || | || ||| || ||| ||||||| | ||| | | | | ||| || ||| | | |
AAATGGGTG--TATGTAGAAA-------TTGTGGATCGAGATGGGAAATCGTCGCTTCTTTCGCTGTA---TATGAAGGTTTCTGCAACTTGAAACAGgtcggtgtttctgcttgttttctgtttttctgttctttgattctctttcctcgggtttttatttgttttttttcttattcagcatctgtactctgtttggMapped 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|116439351|gb|EG481943.1|EG481943EST: ACTTTGATTCTGTTCTTGAAGTTTATGAAGGTTTCTGCAAATTGAAACAG TTGGAATTGAAGCTAAAATTATCCCGGGGTTCTTCTACTCGAAAGATTCTA
genomic: ACTTTGATTCTGTTCTTGAAGTTTATGAAGGTTTCTGCAAATTGAAACAGgtatgcttat ... cttttaatagTTGGAATTGAAGCTAAAATTATCCCGGGGTTCTTCTACTCGAAAGATTCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATCGTTGACCGAGCAGACAACTCTTCTCTCGTCTCCATTGTTAAAAACTTTGATTCTGTTCTTGAAGTTTATGAAGGTTTCTGCAAATTGAAACAGgtatgcttattaaagtggaaaactttcatgctctattctctctgctctagctgatgatggttgaattgcttttaatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG