Sequence
atgc intronic sequence ATGC exonic sequenceTGCCTTTGTTGCACTGTTAGGGGTGATCTTGTCAGGATGATTGGAGAATTAGTCAATACCAAGAAAGGAAAGTTCGATCATATAGTCATAGAGACTACAGgttgggaaagggggcattttcatttagtatgcttagagaatctggggaatgagtaatgactatcttatgtttattttcactttttag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G80480.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G80480.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G43740.1 (Glycine max), 5'ss of exon 3
TGCCTTTGTTGCACTGTTAGGGGTGATCTTGTCAGGATGATTGGAGAATTAGTCAATACCAAGAAAGGAAAGTTCGATCATATAGTCATAGAGACTACAGgttgg-gaaagggggcattttcatttagtatgcttagagaa----tctggggaatgagtaatgactatcttatgtttattttcactttttag-----------------
|||||||| |||||||| |||||||| |||||||| |||||| ||||||||| | ||||||||||| || || ||||| || || |||||||||||| | || ||| | |||| ||| || | || | || || ||| | | | || | | ||| |
TGCCTTTGCTGCACTGTCAGGGGTGACCTTGTCAGAATGATTTCCGAATTAGTCGCAAAGAAGAAAGGAAAATTTGACCATATTGTTATTGAGACTACAGgtaactgccagactttattcttgtttaatatagatatgatagacctccctgtaagttgttatggttgtgcttagtgtgaccgacttgttttgttgtttgtacttaacag
upper sequence: AT1G80480.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA20G38450.1 (Glycine max), 5'ss of exon 3
TGCCTTTGTTGCACTGTTAGGGGTGATCTTGTCAGGATGATTGGAGAATTAGTCAATACCAAGAAAGGAAAGTTCGATCATATAGTCATAGAGACTACAGgttgg-gaaagggggcattttcatttagtat--gcttagagaatctggggaatgagtaatgactatcttatgtttattttcactttttag-----------------------
|| ||||| || ||||| |||||||||||||| | |||||| ||||||||| || ||||||||||| || || ||||| || ||||||||||||||| | || | ||| | |||| ||| | || | | | | ||| | | || || ||| | | ||| | |
TGTCTTTGCTGTACTGTGAGGGGTGATCTTGTTCGAATGATTTCCGAATTAGTCGCTAAGAAGAAAGGAAAATTTGACCATATTGTTATAGAGACTACAGgtaactggcagagtttattcttgtttaatataagatttggtagacctccttgttagttgttatggtc--gtgcttagtatgactgacttgttcccatgtttgtactttgacag
upper sequence: AT1G80480.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv09s0002g08260.t01 (Vitis vinifera), 5'ss of exon 3
TGCCTTTGTTGCACTGTTAGGGGTGATCTTGTCAGGATGATTGGAGAATTAGTCAATACCAAGAAAGGAAAGTTCGATCATATAGTCATAGAGACTACAGgttgggaaagggggcattttcatttagtatgcttagagaatctggggaatgagtaatgactatcttatgtttattttcactttttag-------------
|| || || |||||||| |||||||||||||| ||||||||| |||||| ||||||| |||||||| || || |||||||| || ||||||||||||||| || | || |||| || | | | | || ||| | | ||| || | | | | | || ||| ||
TGTCTCTGCTGCACTGTGAGGGGTGATCTTGTTAGGATGATTTCAGAATTGGTCAATAAAAAGAAAGGGAAATTTGATCATATTGTTATAGAGACTACAGgtaggtatttttctcaaacaactttattaagttaatgtatgctttggagtctgcaattaccacatgttctcttttgatgcttgcaaggaaggaaaaagtgMapped 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|125320838|gb|EL334923.1|EL334923EST: AGTCAATACCAAGAAAGGAAAGTTCGATCATATAGTCATAGAGACTACAG GATTGGCAAAACCCCGGCACC
genomic: AGTCAATACCAAGAAAGGAAAGTTCGATCATATAGTCATAGAGACTACAGgttgggaaag ... cactttttagGATTGGCAAA-CCC-GGCACC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCCTTTGTTGCACTGTTAGGGGTGATCTTGTCAGGATGATTGGAGAATTAGTCAATACCAAGAAAGGAAAGTTCGATCATATAGTCATAGAGACTACAGgttgggaaagggggcattttcatttagtatgcttagagaatctggggaatgagtaatgactatcttatgtttattttcactttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA