Sequence
atgc intronic sequence ATGC exonic sequenceGTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G17720.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttc-ctaagttttccctcaggttat-atgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg
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GTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatgatcattgcattgaatattaatctattaagctgtatccctaatgcattttttctccatgagttc-atctgtatctatt-tcttttcatgttgaa
upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgt-aatcgttttcctaagttttc---cctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg
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GTCACTGGCCAAGATTTGAACCTTGTACCAAGATGCCGGCGTGTATATTCACATGCTCATGATTACCATATTAATTCCATTTCAAATAATAGgttagctaccttcctgatattatggatatctgatcaggcttgtaattttgtaattttgattcttgttctgttgttttattggctccaaactgttacacat----
upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctt-taacacgtttttgctgtctttctccttaatttttccatctcagg--
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GTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgt---cctgcacatatattcatttgaatgtatcatagctaacgttcaaggttttcagctactgaatttggatatggaaatttttagttctaaattttttgctt
upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctttaac--acgtttttgctgtctttctccttaatttttccatctcagg
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GTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAGgtccttcacatcactacaccagtcacttgtatcagtatatgcatttgaatgtaccttagctaatgtttgagtttttcagctattgaatttgagtatgaca--
upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg--
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GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaacctcgagggttcctataatagtctgttcagtgtcaaatcttgcttt--ttggttatctttatttcttttattgtagtgttgatttgaaagt
upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G01440.1 (Glycine max), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatc-gttttcctaagttttccctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg--
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GTAACCAGCCATGAGACCAGTTTGGTGGCTCGATGTCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaaccttgagggttcct--attttaggctgttcagtgtgga-atcttgctttttggttatctttatttgttttaacgtagtgttgatttgaaagt
upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G42800.2 (Glycine max), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatc--gttttcctaagttttccctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttc-catctcagg
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GTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCGCATGCTCATGATTATCACATCAATTCTATTTCAAATAACAGgtattttagttttcttattttgtactttgccatagtctagcaaattttggt-tgaattgagaaccctctgg--gtattcagtgtcaatcttgcatatattattMapped 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|116478423|gb|EG521015.1|EG521015EST: GTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAG TGACGGAGAAACCTTTATTTCGGCTGATGATCTGCGAGTAAATCTCTGGAA
genomic: GTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttt ... attgttacagTGACGGAGAAACCTTTATTTCGGCTGATGATCTGCGAGTAAATCTCTGGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atctcttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccatctc