Sequence
atgc intronic sequence ATGC exonic sequenceACAAGAAGAAGATGATTATTTCACTGCAGAGGAAAACATCCAGCGGAAGAAACTTGATATCGAGATTGAGGAGACTGAGGAAATCGCAAAGAAACGGGAGgtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaagaataaaaaactgcagtcttttattacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G26610.3 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G26610.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G38720.1 (Glycine max), 5'ss of exon 4
ACAAGAAGAAGATGATTATTTCACTGCAGAGGAAAACATCCAGCGGAAGAAACTTGATATCGAGATTGAGGAGACTGAGGAAATCGCAAAGAAACGGGAGgtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaagaataaaaaactgcagtcttttattacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccag
|||||||||||||||| || |||||||| ||||| |||||||| || ||||||||| | ||| | |||||||| |||||| | ||||||||||||||||| || | ||| || | | | || || | || | | | || || || | | | | || | | || | |
GCAAGAAGAAGATGATTTCTTTACTGCAGAAGAAAATATCCAGCGAAAAAAACTTGATGTTGAGTTGGAGGAGACAGAGGAACATGTGAAGAAACGGGAGgtatg-atttataactccttagtagttg-------ctcttagtgcaaaaaccacatagt----agtattgaggttgatgtttatattttctcaaacctgcacctcatagcag-----------------------------
upper sequence: AT5G26610.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0060g00320.t01 (Vitis vinifera), 5'ss of exon 4
ACAAGAAGAAGATGATTATTTCACTGCAGAGGAAAACATCCAGCGGAAGAAACTTGATATCGAGATTGAGGAGACTGAGGAAATCGCAAAGAAACGGGAGgtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaagaataaaaaactgcagtcttttattacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccag
|||||| |||||||||| |||||||||||||||||| || ||||| || || || ||| ||||| | |||||||| |||||| |||||||| |||||||||||| |||||| | | || | ||| ||| | | || | ||| | || | || || ||| | |||| | | |
ACAAGAGGAAGATGATTTTTTCACTGCAGAGGAAAATATTCAGCGAAAAAAGCTGGATGTCGAGCTAGAGGAGACAGAGGAACATGCAAAGAAGCGGGAGgtatgccttcaaagt-----------tgtagtttttagttgtaaaaaattccattactgg---ataatttgaggttgatgctttactttttctga--aacgcacatctaatagcag-------------------------
upper sequence: AT5G26610.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0060g00320.t01 (Vitis vinifera), 5'ss of exon 5
ACAAGAAGAAGATGATTATTTCACTGCAGAGGAAAACATCCAGCGGAAGAAACTTGATATCGAGATTGAGGAGACTGAGGAAATCGCAAAGAAACGGGAGgtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaagaataaaaaactgcagtcttttattacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccag
|| | | | | || | | | |||| | | | | | | ||||| ||| | |||| | | | || | | | || ||| | ||||||||| |||||||| ||||||||| ||||||||||||||||
---------------------------------------------------------------------------------------AAGGCAGCATATAGCATATATGTATGTCT--TTTGACGGGAATGGTATTTCATAA-GGGAACATCA-ACTTTGGAAGGTgttgagaatttcgtgcagtttttat-tacctggtggctt-ctactgcctgcttcgtgcacattatgacaatccagMapped 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|163988903|gb|ES030624.1|ES030624EST: AACTTGATATCGAGATTGAGGAGACTGAGGAAATCGCAAAGAAACGGGAG GTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGT
genomic: AACTTGATATCGAGATTGAGGAGACTGAGGAAATCGCAAAGAAACGGGAGgtatgcgttc ... gacaatccagGTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACAAGAAGAAGATGATTATTTCACTGCAGAGGAAAACATCCAGCGGAAGAAACTTGATATCGAGATTGAGGAGACTGAGGAAATCGCAAAGAAACGGGAGgtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaagaataaaaaactgcagtcttttattacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA