Sequence
atgc intronic sequence ATGC exonic sequenceGTAAAATTCGTCTGTGGGGGTTTAAGCTTTTTTGGGGTGAGAGATGGGTCAAACTTTTCGCAAGCTTTTCGATACCTTCTTCGGCAACCAGGAGATGAGGgtactctccttctctccatcttctgtatttgatttctgtatttgatcgtttactggacggaatcgcgtgttacccatcgttaatcgttatactcgctttc...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G03120.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G03120.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os10g42940.1 (Oryza sativa), 5'ss of exon 1
GTAAAATTCGTCTGTGGGGGTTTAAGCTTTTTTGGGGTGAGAGATGGGTCAAACTTTTCGCAAGCTTTTCGATACCTTCTTCGGCAACCAGGAGATGAGGgtactctccttctctccatcttctgtatttgatttctgtatttgatcgtttactggacggaatcgcgtgttacccatcgttaatcgttatactcgctttc--
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CTGGAAGCTTCTAGATCCGGCCGCTACGATCGGCGAAGAAGGGATGGGGCAGGCCTTCCGCAAGCTCTTCGACGCCTTCTTCGGCAACAAGGAGATGCGGgtaccccaagcttttccactct---tgtctg--tctcgtctcagattgggttttggacgga------------tcatggatgatggtggttttggctggcag
upper sequence: AT3G03120.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA12G02110.1 (Glycine max), 5'ss of exon 1
--GTAAAATTCGTCTGTGGGGGTTTAAGCTTTTTTGGGGTGAGAGATGGGTCAAACTTTTCGCAAGCTTTTCGATACCTTCTTCGGCAACCAGGAGATGAGGgtactctccttc--tctccatcttctgtatttgatttctgtatt--tgatcgtttactggacggaatcgcgtgttacccatcgttaatcgttatactcgctttc
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TTTTGTGATTC--TCGATTTGATTTGGATCGCACAGAACGAAGGCATGGGTCAAGCTTTTCGGAAGCTCTTCGACACCTTCTTCGGCAACACCGAGATGCGGgtctcttccttccttctccattccttaatagcaacagtcataataatgataatataataattctta--gaagaatagatgtcattttttgct-taataacgct-
upper sequence: AT3G03120.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA01G43910.1 (Glycine max), 5'ss of exon 1
GTAAAATTCGTCTGTGGGGGTTTAAGCTTTT--TTGGGGTGAGAGATGGGTCAAACTTTTCGCAAGCTTTTCGATACCTTCTTCGGCAACCAGGAGATGAGGgtactctccttctctccatcttctgtatttgatttctgtatttgatcgtttactggacggaatcgcgtgttacccatcgttaatcgttatactcgctttc
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--ATTTTTTACCTTTCAATTTTTGATACTCGGACCCGGCACCGGCATGGGTCAAGCTTTTCGAAAGCTCTTTGACACCTTCTTCGGCAACACCGAGATGAGGgtaactttctgcttgct-tgttaaacgttaattttttacactcaatttattattaactt--------tattatt--tccttgatctgtttgttcag----
upper sequence: AT3G03120.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA11G09790.2 (Glycine max), 5'ss of exon 1
GTAAAATTCGTCTGTGGG--GGTTTAAGCTTTTTTGGGGTGAGAGATGGGTCAAACTTTTCGCAAGCTTTTCGATACCTTCTTCGGCAACCAGGAGATGAGGgtactctccttc--tctccatcttctgtatttgatttctgtatttgatcgtttactggacggaatcgcgtgttacccatcgt-taatcgttatactcgctttc
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--ATAATCAGTTCTCGATTTGATTTGATCGGAACAGAACAGAGGCATGGGTCAAGCTTTTCGGAAGCTCTTCGACACCTTCTTCGGCAATACCGAGATGCGGgtctcttccttccttctccat-tccttttttttattattattctttttcttttaatatcaacggtca--taataatgataatataataattctaagaagaaga
upper sequence: AT3G03120.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv16s0039g02240.t01 (Vitis vinifera), 5'ss of exon 1
GTAAAATTCGTCTGTGGGGGTTTAAGCTTTTTTGGGGTGAGAGATGGGTCAAACTTTTCGCAAGCTTTTCGATACCTTCTTCGGCAACCAGGAGATGAGGgtactctccttctctccatcttctgtatttgatttctgtatttgatcgtttactggacggaatcgcgtgttacccatcgttaatcgttatactcgctttc-------
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ACACAAATATTGAGAGAGAAAAGAACAGAGGAAAAAAGCAGGCATGGGTCAAGCCTTTCGCAAGCTCTTCGATACCTTCTTCGGCAACTCTGAGATGAGGgtaccctt-ttttctctatctttttctttacatacccatttgt-attatgtgtt--tctgtat-atgggtttctttttgtt--tcgtttcaattcatttctttttatMapped 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|19876194|gb|AU237025.1|AU237025EST: AAACTTTTCGCAAGCTTTTCGATACCTTCTTCGGCAACCAGGAGATGAGG GTCGTTATGCTGGGTCTGGATGCGGCTGGCAAAACAACGATACTATACAAG
genomic: AAACTTTTCGCAAGCTTTTCGATACCTTCTTCGGCAACCAGGAGATGAGGgtactctcct ... gagatgccagGTCGTTATGCTGGGTCTGGATGCGGCTGGCAAAACAACGATACTATACAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTAAAATTCGTCTGTGGGGGTTTAAGCTTTTTTGGGGTGAGAGATGGGTCAAACTTTTCGCAAGCTTTTCGATACCTTCTTCGGCAACCAGGAGATGAGGgtactctccttctctccatcttctgtatttgatttctgtatttgatcgtttactggacggaatcgcgtgttacccatcgttaatcgttatactcgctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcgcttt