Sequence
atgc intronic sequence ATGC exonic sequenceACACAACGCATATGATCAAGATCCATATGCAAAGGAGTTTGGCATGAACATAAGCGAAAAGTTAGCTTCTGTTGAAGCTCGTATTCTTCCAGCTCCATGGgtaaaaaacctaaacagatctctgaatgctcatactatgagaatactgttatgttaattcgtctctctttgcttgctacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G43810.2 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G43810.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA20G28970.1 (Glycine max), 5'ss of exon 10
ACACAACGCATATGATCAAGATCCATATGCAAAGGAGTTTGGCATGAACATAAGCGAAAAGTTAGCTTCTGTTGAAGCTCGTATTCTTCCAGCTCCATGGgtaaaaaacctaaacagat-ctctgaatgctcatactatgagaatactgttatgttaattcgtctct-ctttgcttgctacag-----------------------
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ACATAATGCTTATGATCAAGATCCTTATGCAAAGGAATTTGGAATTAAAATCAGTGAAAAGCTAGCTTCTGTTGAAGCACGAATTCTTCCTGCTCCTTGGgtaatgtgcttcttcatcttcttctaaagatctggtttgtcatatactgaaaccttaagttaccttttccctgccattcattaatttaaagcacttctgagcgcag
upper sequence: AT5G43810.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA10G38770.1 (Glycine max), 5'ss of exon 10
ACACAACGCATATGATCAAGATCCATATGCAAAGGAGTTTGGCATGAACATAAGCGAAAAGTTAGCTTCTGTTGAAGCTCGTATTCTTCCAGCTCCATGGgtaaaaaacctaaac----agatctctgaatgctcatactatgagaatactgttatgttaattcgtctctctttgcttgctacag---------------
||| || || |||||||||||||| ||||||||||| ||||| || || || || |||||| |||||||||||||||| || |||||||| || || ||||||| | | | | | ||||| | ||||| ||| | | || | | | | || | || ||
ACATAATGCTTATGATCAAGATCCTTATGCAAAGGAATTTGGAATTAAAATCAGTGAAAAGCTAGCTTCTGTTGAAGCACGAATTCTTCCGGCCCCTTGGgtaatgtgcttctccttctaaagatctgatttgtcatatactgaaactttaatttaccttttccctgtcattcattaatttaaagcacttctgaatgcag
upper sequence: AT5G43810.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA02G00510.1 (Glycine max), 5'ss of exon 9
ACACAACGCATATGATCAAGATCCATATGCAAAGGAGTTTGGCATGAACATAAGCGAAAAGTTAGCTTCTGTTGAAGCTCGTATTCTTCCAGCTCCATGGgtaaaa--aacctaaac--agatctctga-atgctcatactatgagaatactgtta----tgttaattcgtctctctttgcttgctacag
||||| || |||| ||||||||| ||||||||||| ||||| || || || || |||||| |||||||||| ||||| || ||||| || || |||||||||| | || ||| ||| | | | || || | | ||||| | | || | || ||| | | | | || |||
GCACAATGCTTATGGTCAAGATCCTTATGCAAAGGAATTTGGGATTAAAATTAGTGAAAAGCTAGCTTCTGTAGAAGCGCGAATTCTCCCTGCCCCATGGgtaatgtgcatctcaaccaagaggtgtaagatacttaaagtatgattacttttttttcactattgattgatatgcagtacttgtctgcag
upper sequence: AT5G43810.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 5'ss of exon 9
ACACAACGCATATGATCAAGATCCATATGCAAAGGAGTTTGGCATGAACATAAGCGAAAAGTTAGCTTCTGTTGAAGCTCGTATTCTTCCAGCTCCATGGgtaaaaaacctaaacagatctctgaatgctcatactatgagaa-tactg----ttatgttaattcgtctctctttgcttgctacag
||| || || |||||||||||||||||||||||||||||||| || || || || ||||| |||||||||||||| ||||| |||||||| ||||| ||||||| | | | | | | | || | |||| | || | || || || ||| | | || |||
ACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTGCTCCTTGGgtaatattcaccatcctaaatttatatatgtgaaagatgataggtattacacattgtgcctgatctgacttctattttatctgcagMapped 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|86072813|gb|DR368570.1|DR368570EST: TAAGCGAAAAGTTAGCTTCTGTTGAAGCTCGTATTCTTCCAGCTCCATGG CTTAAGTATCACGAGAACGGGAAAGAAAAAGATTGTCTCCCGCAAGTTGGT
genomic: TAAGCGAAAAGTTAGCTTCTGTTGAAGCTCGTATTCTTCCAGCTCCATGGgtaaaaaacc ... cttgctacagCTTAAGTATCACGAGAACGGGAAAGAAAAAGATTGTCTCCCGCAAGTTGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACACAACGCATATGATCAAGATCCATATGCAAAGGAGTTTGGCATGAACATAAGCGAAAAGTTAGCTTCTGTTGAAGCTCGTATTCTTCCAGCTCCATGGgtaaaaaacctaaacagatctctgaatgctcatactatgagaatactgttatgttaattcgtctctctttgcttgctacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC