Sequence
atgc intronic sequence ATGC exonic sequenceTTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAGgtttagtgaattatttgttgtcgatgaaacactagttaaagtcttcattgttgatgtttgatgtttttgtatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G05910.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA19G41240.1 (Glycine max), 5'ss of exon 2
TTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAGgtttagtgaattatttgttgtcgatgaaacactagttaaagtcttcattgttgatgtttgatg--tttttgtatcag--------------------------
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TCTGCTTGGATGGAACATTGCCTGGTTATCATTGGCATCGGGGATATGGATCAGGAGCAAATAGCTGGCTTATTAATTTAGAGgtat--tgctttacttgatctcttt-aattaattgttctgtttcattttatttttctgtaatagatttgtgtagcaaataatatatgccttgcaaaaggttga
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA20G22210.1 (Glycine max), 5'ss of exon 2
TTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAGgtttagtg-aattatttgttgtcgatgaaacactagttaaagtcttcattgttgatgtttgatgtttttgtatcag---------------------------
|||| |||||||||||||||||||| ||||| ||||| || ||| ||||||| ||||| || |||||| || || | || ||||| | | ||| ||| | | || | ||||| | | ||| | | | | | || ||
TTTGCTTGGATGGAACATTGCCTGGTTATCATTTGCATCGGGGATATGGATCAGGAGCAAACAGCTGGGTCGTTAATTTAGAGgtatcacatgaatatgatctgtagcacgtgcttctttttatttcttcttaatagattt---agatctgtataccaaaataatataccatgcaagtttaatagt
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA03G38650.1 (Glycine max), 5'ss of exon 2
TTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAGgtttagtgaattatttgttgtcgatgaaacactagttaaagtcttcattgttgatgtttgatgtttttgtatcag--------------------------
| || ||||| |||||||| ||||| ||||| ||||| || ||| ||||||| ||||| ||||||||||| ||| | || ||||| | || | | | || | | | | | || | | | | ||| | || | | |
TCTGCTTGGACGGAACATTACCTGGTTATCATTTGCATCGGGGATATGGATCAGGAGCAAATAGCTGGCTTATTAATTTAGAGgtattactttttctctttagttgttctgtttc-attgtaattttctgtaatagatttgtgtagcaaacaaaatatgccttgcaaaagtttgataagtcttt
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G28230.2 (Glycine max), 5'ss of exon 2
TTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAGgtttag--tgaattatttgttgtcgatgaaacactagttaaagtcttcatt-gttgatgtttgatgtttttgtatcag----------------------
|||| ||||||||||||||||||| ||||| ||||| || ||| ||||||| ||||| || |||||| || || | || ||||| | ||||| | || || | | ||| | | ||| | | || || ||| || |
TTTGCTTGGATGGAACATTGCCTGCTTATCATTTGCATCGGGGATATGGATCAGGAGCAAACAGCTGGATCGTTAATTTAGAGgtatcacatgaatatgatctttcaaattgatctgtagcacgtgcttctatttatatcttcttaatagatttagatttgtataccgaaataatataccatg
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv14s0060g00230.t01 (Vitis vinifera), 5'ss of exon 2
TTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAGgtttagtgaattatttgttgtcgatgaaacactag----ttaaagtcttcattgttg----atgtttgatgtttttgtatcag-----------------
||||||| ||||||||||| || || ||||| ||||| |||||| |||| || || || || || |||||||||||||||||||| | | | | ||| ||| || || || | | || || | || ||||||| | |
TTTGTTTAGATGGAACATTACCGGGGTATCATTTGCATCGTGGATATGGGTCAGGGGCAAACAGTTGGCTCATTCAATTGGAGgtctgtgaagcagagttagaacaatggaactttataattttcaatatataaatgctgctttacactttatgttttcttgcaaaagttcaaaattttatatMapped 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|164175316|gb|ES210453.1|ES210453EST: TGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAG GGAGGAGGATGGTGCAACAACATCAGGAC
genomic: TGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAGgtttagtgaa ... tttgtatcagGGAGGAGGATGGTGCAACAACATCAGGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAGgtttagtgaattatttgttgtcgatgaaacactagttaaagtcttcattgttgatgtttgatgtttttgtatcag
- - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG