Sequence
atgc intronic sequence ATGC exonic sequenceATTTGGAAACATGTGCAAGATAGTATTTGAATCTATCATCTACTTGTTTGTGATACATCCGTTTGATGTAGGCGATCGATGTGAAATTGATGGAGTCCAGgtaacttcaaaaaactagtaactaatagttctcatttttcaattctaatgtttaaaaaacttcttgtttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G78610.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G78610.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os04g47320.1 (Oryza sativa), 5'ss of exon 3
ATTTGGAAACATGTGCAAGATAGTATTTGAATCTATCATCTACTTGTTTGTGATACATCCGTTTGATGTAGGCGATCGATGTGAAATTGATGGAGTCCAGgtaac-------ttcaaaaaacta---gtaactaatagtt--ctcatttttcaattctaatgtttaaaaaacttcttgtttcag
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GTTTGGCAACACTCTGAAGACCATCTTTGAGGCGATTGTGTTCTTGTTTGTGATGCATCCTTTTGATGTTGGCGATCGTTGTGAAGTTGATGGGATGCAGgttacaattcttttcattgttctatctgcattgtatgattgcttcacactgtctgacttggttctaaactgttgcgaaattcag
upper sequence: AT1G78610.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA20G23910.1 (Glycine max), 5'ss of exon 5
ATTTGGAAACATGTGCAAGATAGTATTTGAATCTATCATCTACTTGTTTGTGATACATCCGTTTGATGTAGGCGATCGATGTGAAATTGATGGAGTCCAGgtaa----cttcaaaaaactagtaactaatagttctcatttttcaattctaatg-tttaaaaaacttcttgtttcag------------------
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ATTTGGAAACACCTGCAAGACCATATTTGAAGCAATTATTTTCTTGTTTGTCATGCACCCATTTGATGTGGGAGATAGATGTGAAATTGATGGGGTTCAGgtaatgttcatccatcgacgagttttaagcagattctgttttcatgtagacatggcctaattcccccctccaccccgtttgctaaccaatttcag
upper sequence: AT1G78610.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv03s0038g02980.t01 (Vitis vinifera), 5'ss of exon 4
------ATTTGGAAACATGTGCAAGATAGTATTTGAATCTATCATCTACTTGTTTGTGATACATCCGTTTGATGTAGGCGATCGATGTGAAATTGATGGAGTCCAGgta---acttcaaaaaactagtaac-taatagttctcatttttcaattctaatgtttaaaaaacttcttgtttcag--------------------------------
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ATTTATATTTGGAAACACCTGCAAAAATATATTTGAAGCCATAATCTTCTTATTTGTGATGCATCCTTTTGATGTGGGTGATCGGTGTGAGATTGATGGAgttcaggtacaaacagttgaaacttagtttcatgatcatatatctttttgtgtatccatatctgatgcattttttttttcatccattctgggctctaactctcattcaaatgagMapped 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|164233475|gb|ES093187.1|ES093187EST: ATGTAGGCGATCGATGTGAAATTGATGGAGTCCAG ATGGTTGTGGAAGAGATGAACATATTGACAACAGTTTTCTTGAGATTTGAT
genomic: ATGTAGGCGATCGATGTGAAATTGATGGAGTCCAGgtaacttcaa ... cttgtttcagATGGTTGTGGAAGAGATGAACATATTGACAACAGTTTTCTTGAGATTTGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTTGGAAACATGTGCAAGATAGTATTTGAATCTATCATCTACTTGTTTGTGATACATCCGTTTGATGTAGGCGATCGATGTGAAATTGATGGAGTCCAGgtaacttcaaaaaactagtaactaatagttctcatttttcaattctaatgtttaaaaaacttcttgtttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA