Sequence
atgc intronic sequence ATGC exonic sequenceGGAGTCACGTGGCATGACAGAAGATGCTCTAGAAGTAGCAACTGATCCTGACTACAGATTTGAGTTGGCCATACAGCTCGGTAGATTGGCTGTCGCAAAGgttagtctgtagtttttaccatttgagaagctttatttccatgacttaccgatatgtttttactcgattcttattttttgacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G79990.1 |
intron # | 22 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 18
GGAGTCACGTGGCATGACAGAAGATGCTCTAGAAGTAGCAACTGATCCTGACTACAGATTTGAGTTGGCCATACAGCTCGGTAGATTGGCTGTCGCAAAGgttagtctgtagtttttaccatttgagaa-----gctttatttccatgacttaccgatatgtttttactcgattctt-attttttgacag------------------------------------------------------
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TGAATCACGAGGGATGATAGAAGATGCTCTTGAAGTAGCTACTGACCCTGAGTACAGATTTGATCTATCAATACAGCTTGGAAAACTAGATGTTGCAAAGgtatgttcatgcaatatatctacaaggagatattgtttaatttgtgaaaattgttaacttgggtatccaatattcttcatttcttttcatcagtttgatttgtcattttatatcacaaataatatacctcctttttctttgcag
upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 18
GGAGTCACGTGGCATGACAGAAGATGCTCTAGAAGTAGCAACTGATCCTGACTACAGATTTGAGTTGGCCATACAGCTCGGTAGATTGGCTGTCGCAAAGgttagtctgta----gtttttaccatttgagaa-gctttatttccatgacttaccgatatgt---ttttactcgattc-ttattttttgacag---------------------------------------------------
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GGAATCACGAGGTATGATAGAAGATGCCCTTGAAGTAGCTACTGACCCTGACTACAGATTTGATCTAGCAATACAGCTTGGAAAACTAGATGTTGCAAAGgtatgctcatgtaatatgtctacaaggagatattgtttaatttgtgaaagctgttaacttgggtatctaattttcttcatttctcttcatcagtttgatttgtcattttatatcacaaataatatacctccttttcccatgcag
upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 7
GGAGTCACGTGGCATGACAGAAGATGCTCTAGAAGTAGCAACTGATCCTGACTACAGATTTGAGTTGGCCATACAGCTCGGTAGATTGGCTGTCGCAAAGgttagtctgta-gtttttac-----catttgagaagctttat----ttccatgacttaccgatatgtttttactcgattcttattttttgacag----------------------------------------------
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GGAATCACGAGGGATGATAGAGGATGCTCTTGAAGTAGCTACTGACCCTGACTATAGGTTTGATCTAGCCATACAGCTTGGAAGATTAGAGGTTGCTAAGgtaagttcatatgttcctgcaaggatatattatttgactcgtgaaatttcataactctgctatttaatttt-ctgcatttctaatttgcactagtttgatttgagtttatattgtgagtaatgctcatcttcttttgcagMapped 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|125035006|gb|EL107275.1|EL107275EST: ATTTGAGTTGGCCATACAGCTCGGTAGATTGGCTGTCGCAAAG GACATTGCTGTAGAGGCACAAAATGAATCTAAATGGAAGCAACTTGG
genomic: ATTTGAGTTGGCCATACAGCTCGGTAGATTGGCTGTCGCAAAGgttagtctgt ... tttttgacagGACATTGCTGTAGAGGCACAAAATGAATCTAAATGGAAGCAACTTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAGTCACGTGGCATGACAGAAGATGCTCTAGAAGTAGCAACTGATCCTGACTACAGATTTGAGTTGGCCATACAGCTCGGTAGATTGGCTGTCGCAAAGgttagtctgtagtttttaccatttgagaagctttatttccatgacttaccgatatgtttttactcgattcttattttttgacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG