Sequence
atgc intronic sequence ATGC exonic sequenceGGTGGAGATGATGCAGAGACGGAGTCCGCCCAAGCACAGGCATGACGGAACATCGCCGCTTCCATTAGGAATGGATTGGAGTCCTCCACCGCGCAAATGGgtgagttcttttgttgccaaaaattcgaactttattggactttaccacgttaccttttggaagtgccgtgctagaattcttcagttgcctgctttattct...
Basic information
species | Arabidopsis thaliana |
transcript | AT4G32160.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G32160.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA04G06980.1 (Glycine max), 5'ss of exon 1
GGTGGAGATGATGCAGAGACGGAGTCCGCCCAAGCACAGGCATGACGGAACATCGCCGCTTCCATTAGGAATGGATTGGAGTCCTCCACCGCGCAAATGGgtgagttcttttgttgccaaa---aattcgaactttattggactttaccacgttaccttttggaagtgccgtgctagaattcttcagttgcctgctttattct-
||||||||||| ||||| || ||||||||||| ||||| || |||||||| || | || ||||||||||| ||| | || || |||||||| |||| || | | || |||| | |||||| | | | | | || || | | | || ||| | | ||||
----------ATGCAGAGACGAAGTCCTCCGAAGCACAGGCACGACGGGACTTCGCCGCTGCCTCTCGGCATGGATTGGAGCCCTGCGCCTCGAAAATGGgttagtttcttattcttctaatgtaattgtagttttattcg-cgcgattgaatgaact---ggttctattttcttcgatcaacctccttgtcaatactcttctc
upper sequence: AT4G32160.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv04s0008g05630.t01 (Vitis vinifera), 5'ss of exon 1
GGTGGAGATGATGCAGAGACGGAGTCCGCCCAAGCACAGGCATGACGGAACATCGCCGCTTCCATTAGGAATGGATTGGAGTCCTCCACCGCGCAAATGGgtgagttcttttgttgccaaaaattcgaactttattggacttta---ccacgttaccttttggaagtgccgtgctagaattcttcagttgcctgctttattct---
||| ||| | |||||||| |||||||| || || || || ||||| || ||||| || ||||| ||||||||||| ||||| |||||||| | | || | || | ||| || ||| ||| | | | || | | || || | | || | || ||| || || | |
----------ATGAGGAGGAGTAGTCCGCCGAAGCACAGACACGATGGGACTTCGCCACTGCCATTGGGGATGGACTGGAGTCCTCCTCCGCGGAAATGGgtaacattttcttttc----agcttcaaaatttgttgaattcgaaatttacttgaaattctgatgaacttgaatttga--ttttgagtgaattgtgttggttttatMapped 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|164140836|gb|ES121198.1|ES121198EST: CATCGCCGCTTCCATTAGGAATGGATTGGAGTCCTCCACCGCGCAAATGG AATGGTAGAGATACTGTTTGGCCTC
genomic: CATCGCCGCTTCCATTAGGAATGGATTGGAGTCCTCCACCGCGCAAATGGgtgagttctt ... atttctgcagAATGGTAGAGATACTGTTTGGCCTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTGGAGATGATGCAGAGACGGAGTCCGCCCAAGCACAGGCATGACGGAACATCGCCGCTTCCATTAGGAATGGATTGGAGTCCTCCACCGCGCAAATGGgtgagttcttttgttgccaaaaattcgaactttattggactttaccacgttaccttttggaagtgccgtgctagaattcttcagttgcctgctttattct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gccaaaaa