Sequence
atgc intronic sequence ATGC exonic sequenceATGGGAAGGTGGTCAGTATGAAGGTGATGAAAATGAGAGACGGGATGTGCTTCGTCTGGCCATGGAGTTGGGAGCTGATTATATTGATGTTGAACTTCAGgtgaccatcgtaatatattttggatattttagaagatgtttttgatgctaattagtttctcctactttatatttgtatgttaag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G06350.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G06350.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA01G20760.1 (Glycine max), 5'ss of exon 3
ATGGGAAGGTGGTCAGTATGAAGGTGATGAAAATGAGAGACGGGATGTGCTTCGTCTGGCCATGGAGTTGGGAGCTGATTATATTGATGTTGAACTTCAGgtgaccatcgtaatatattttggatattttagaagatgtttttgatgctaattagtttctcctactttatatttgtatgttaag------------------
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ATGGGAGGGTGGTATGTATGATGGTGATGAAAATAAACGGCTGGATGCACTTCGGTTAGCCATGGAGTTGGGAGCTGATTACATTGACATTGAACTTCAGgttgtgctccctttgtctatataaattccactgacaactttactatactg--taaacacttggaatgaatatatgagccaaaatgtaatatttactcaattc
upper sequence: AT3G06350.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA0022S00200.1 (Glycine max), 5'ss of exon 1
ATGGGAAGGTGGTCAGTATGAAGGTGATGAAAATGAGAGACGGGATGTGCTTCGTCTGGCCATGGAGTTGGGAGCTGATTATATTGATGTTGAACTTCAGgtgaccatcgtaatatattttggatattttagaagatgtttttgatgctaattagtttctcctactttatatttgtatgttaag----------------
|||||| |||| ||||||| | | ||||| ||||| | || ||||| ||||||||||||||| |||| ||| |||||||||| || | | | | | | | | ||| || || | | | | | | | |||| |
-------------ATGTATGATGGTGGTGAAAATAAACGGTTGGATGCACTTCGGTTAGCAATGGAATTGGGAGCTGATTATGTTGACGTTCAACTTCAGgttgtgttccctttctctatataaattccactgacaactttactatactgttaactcttggaatatatgaaccaaaatgtaatatttactcaatttagac
upper sequence: AT3G06350.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv05s0020g02030.t01 (Vitis vinifera), 5'ss of exon 2
ATGGGAAGGTGGTCAGTATGAAGGTGATGAAAATGAGAGACGGGATGTGCTTCGTCTGGCCATGGAGTTGGGAGCTGATTATATTGATGTTGAACTTCAGgtgaccatcgt---aatatattttggat----attttagaagatgtttttgatgctaattagtttctcctac-----tttatatttgtatgttaag----
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ATGGGAAGGCGGCCAGTATGAAGGTGATGAAAACAGCCGAAGGGATGCACTGCGATTAGCGATGGAACTGGGAGCTGATTATGTTGACATTGAGCTTAAGgtagttttcttgtcaatgaacctgaaaagagaaagctaaaacactgccatgatatatatgaggatatccaaaagaagttcaaaatttcagtttggaaccaMapped 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|124907063|gb|EH981143.1|EH981143EST: CCATGGAGTTGGGAGCTGATTATATTGATGTTGAACTTCAG GTGGCAAGTGAGTTCATCAAATCTATTAGACGGAAAGAAGCCTGG
genomic: CCATGGAGTTGGGAGCTGATTATATTGATGTTGAACTTCAGgtgaccatcg ... gtatgttaagGTGGCAAGTGAGTTCATCAAATCTATT-GACGGAAAGAAGCCTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGGGAAGGTGGTCAGTATGAAGGTGATGAAAATGAGAGACGGGATGTGCTTCGTCTGGCCATGGAGTTGGGAGCTGATTATATTGATGTTGAACTTCAGgtgaccatcgtaatatattttggatattttagaagatgtttttgatgctaattagtttctcctactttatatttgtatgttaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT