Sequence
atgc intronic sequence ATGC exonic sequenceAGATGATATGAGCGCAATACTCGCTGTGAAGTTAAGAAAAAGACTTGGGTTTGGAATGTGGACAAAGTTGCATTTGACAGGAATGCATGTTGAAGGAAAGgtagtgcattttcttttctgcagcttcacttacacgcttccttcaatgaagtatcttacttcatatcggtatctttaactattgaag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G14590.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G14590.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G33580.1 (Glycine max), 5'ss of exon 5
AGATGATATGAGCGCAATACTCGCTGTGAAGTTAAGAAAAAGACTTGGGTTTGGAATGTGGACAAAGTTGCATTTGACAGGAATGCATGTTGAAGGAAAGgtagtgcattttcttttctgcagcttcacttacacgcttccttcaatgaagtatcttacttcatatcggt-atct-ttaactattgaag------------
||||||||||| |||||||| |||||||| ||||||||||| | || |||||||||||| |||| |||| | || ||||||||||||||||| |||||| || | ||| | | | | |||| || | | | || | ||| ||| | || | ||| || | |
TGATGATATGAGTGCAATACTTGCTGTGAAACTAAGAAAAAGATTGGGCTTTGGAATGTGGGCAAAACTGCACATCACGGGAATGCATGTTGAAGGGAAGgtatgacaatggaattttgatttcat-agtgacacatttgttgaatattaacattctttttcttattatttatttattataagttcatggatacaagcttg
upper sequence: AT3G14590.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G39380.1 (Glycine max), 5'ss of exon 5
AGATGATATGAGCGCAATACTCGCTGTGAAGTTAAGAAAAAGACTTGGGTTTGGAATGTGGACAAAGTTGCATTTGACAGGAATGCATGTTGAAGGAAAGgtagtgcattttcttttctgcagcttcacttacacgcttccttca-atgaagtatcttacttcatatcggtatctttaactattgaag--------------
||||||||||| || ||||| |||||||| |||||||||| | || |||||||||||| |||| |||| | |||||||||||||||||||| |||||| || | ||| || | || | |||| || | | || || | || | |||| || ||| || | |
TGATGATATGAGTGCTATACTTGCTGTGAAACTAAGAAAAAGGTTGGGCTTTGGAATGTGGGCAAAACTGCACATTACAGGAATGCATGTTGAAGGGAAGgtatgacaatggaattt-tgattttacagtgacacatttgttgaatattaaattcttttttctatatttac-tcaataaaagttcatggatacaagcttgga
upper sequence: AT3G14590.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G22500.1 (Glycine max), 5'ss of exon 2
------------AGATGATATGAGCGCAATACTCGCTGTGAAGTTAAGAAAAAGACTTGGGTTTGGAATGTGGACAAAGTTGCATTTGACAGGAATGCATGTTGAAGGAAAGgtagtgcattttcttttctgcagcttcacttacacgcttccttcaatgaagtatcttacttcatatcggtatctttaactattgaag
| | | | || ||||| |||||||| |||||||||| | || |||||||||||| ||| |||| | |||||||||||||||||||| |||||| ||| | ||| || | | | |||| || || | | || | || ||| | || | || |||
TTTCAAATTCTGAAACAGTCCAGGTGCTATACTTGCTGTGAAACTAAGAAAAAGGTTGGGCTTTGGAATGTGGGAAAAACTGCACATTACAGGAATGCATgttgaagggaaggtatggcaatggaattt-tgattttatagtgacacatttg-ttgagtattaaattcttttttctattatttact----caatacaag
upper sequence: AT3G14590.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv19s0138g00140.t01 (Vitis vinifera), 5'ss of exon 5
AGATGATATGAGCGCAATACTCGCTGTGAAGTTAAGAAAAAGACTTGGGTTTGGAATGTGGACAAAGTTGCATTTGACAGGAATGCATGTTGAAGGAAAGgtagtgcattttcttttctgcagcttcacttacacgcttccttcaatgaagtatcttacttcatatcggtatctttaactattgaag----------------
||||||||||| |||||||| ||| | || | || | |||| | || |||||||||||| |||| || |||||||| || |||||||||||||| |||||| | | | || | ||| | | | | |||| || | || | ||| | ||| || | ||| |
TGATGATATGAGTGCAATACTAGCTATAAAACTGAGGAGAAGATTGGGATTTGGAATGTGGGCAAAATTACATTTGACTGGCATGCATGTTGAAGGGAAGgtacagatatgattcttatattacttagttcagtcagtgccttgaagctttgtttttccatcaaa--aatatgttca-ctagaaagaagtaaattatatgttaMapped 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|164097219|gb|ES186754.1|ES186754EST: CATTTGACAGGAATGCATGTTGAAGGAAAG GTGTTGATTGGAGTGAAGTTCCTTCGTCGATGGCCTCTTCTCGGGCGTTTA
genomic: CATTTGACAGGAATGCATGTTGAAGGAAAGgtagtgcatt ... actattgaagGTGTTGATTGGAGTGAAGTTCCTTCGTCGATGGCCTTTTCTCGGGCGTTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGATATGAGCGCAATACTCGCTGTGAAGTTAAGAAAAAGACTTGGGTTTGGAATGTGGACAAAGTTGCATTTGACAGGAATGCATGTTGAAGGAAAGgtagtgcattttcttttctgcagcttcacttacacgcttccttcaatgaagtatcttacttcatatcggtatctttaactattgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA