Sequence
atgc intronic sequence ATGC exonic sequenceTGTGACAACATTTTTATAAATGGGAACCAAGGAGAAGTCAAGATTGGAGATCTTGGTCTTGCTGCTTGTTTACAACACTCTCACGCTGCTCATTGTGTTGgtaagcaatctctcttcagtgtttttgctttgctgaatccatcaatagttggattatgatctgttgaaagttgtttgatatctttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G28080.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G28080.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv05s0020g03380.t01 (Vitis vinifera), 5'ss of exon 4
TGTGACAACATTTTTATAAATGGGAACCAAGGAGAAGTCAAGATTGGAGATCTTGGTCTTGCTGCTTGTTTACAACACTCTCACGCTGCTCATTGTGTTGgtaagcaatctctcttcagtgtttttgctttgctgaatccatcaatagttggattatgatctgttgaaagttgtttgatatctttag------------------------------------------------------------------
||||||||||||||| | ||||| |||||||| |||||||||||||| ||||| || || ||||| | | | | || || || ||||| |||||||||||| | | |||| || || | || | | | | |||| ||||| | | | ||| | | ||
TGTGACAACATTTTTGTCAATGGCAACCAAGGGGAAGTCAAGATTGGTGATCTGGGGCTGGCTGCAATTCTTCGGAAATCCCATGCAGCTCACTGTGTTGgtaag-------tttgtagtgcttcaaattccttcaactc-ttatgaagtggac-atgatgtactaagtgtttcaccacacaaacagaatcgaataaatccagagtgagttcatagatcgtttttttttccttctcgactttttccctctcag
upper sequence: AT5G28080.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0030g01660.t01 (Vitis vinifera), 5'ss of exon 4
TGTGACAACATTTTTATAAATGGGAACCAAGGAGAAGTCAAGATTGGAGATCTTGGTCTTGCTGCTTGTTTACAACACTCTCACGCTGCTCATTGTGTTGgtaag-----------caatctctcttcagtgtttttgct--ttgctgaatccatcaat--agttggattatgatctgtt--gaaagttgtttgat---atctttag--------------------------
|||||||| |||||| ||||||| |||||||||||||| |||||||| ||||| || |||||||| | | | | | || || |||||||| |||||||||| | ||| | | | | | | || | | || | ||| | | | | || | || | ||| || ||| | ||||| |
TGTGACAATATTTTTGTAAATGGCAACCAAGGAGAAGTTAAGATTGGTGATCTAGGGCTTGCTGCAATTCTCCGAAAATCACATGCTGCTCACTGTGTTGgtatgtttaattgatccaaaccccatgaaatttcttcacagatcactatacccacaactgaaaattagttgaatttagtaagggaaggtgattggtttcatcttaaatggttttgggtcctgttttttatcagMapped 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|19876452|gb|AU237283.1|AU237283EST: TCTTGGTCTTGCTGCTTGTTTACAACACTCTCACGCTGCTCATTGTGTTG GCACACCAGAGTTCATGGCTCCTGAAGTTTATAAAGAAGAATATACCCATT
genomic: TCTTGGTCTTGCTGCTTGTTTACAACACTCTCACGCTGCTCATTGTGTTGgtaagcaatc ... atatctttagGCACACCAGAGTTCATGGCTCCTGAAGTTTATAAAGAAGAATATAACCAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGACAACATTTTTATAAATGGGAACCAAGGAGAAGTCAAGATTGGAGATCTTGGTCTTGCTGCTTGTTTACAACACTCTCACGCTGCTCATTGTGTTGgtaagcaatctctcttcagtgtttttgctttgctgaatccatcaatagttggattatgatctgttgaaagttgtttgatatctttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT