Sequence
atgc intronic sequence ATGC exonic sequenceGTTGGACAAATACGAGAGGCATCTAACAAGGCAAACAATGCTGAGCTAAAGCTGTTTTTGGAAATAGAGCGTGGACCGgtaatactaccttgctgtcaagtttaattgttgaggcttatttattgaatgaagggaagaaattaaatagtcttactaattcttgaattattcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G11910.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 5'ss of exon 13
GTTGGACAAATACGAGAGGCATCTAACAAGGCAAACAATGCTGAGCTAAAGCTGTTTTTGGAAATAGAGCGTGGACCGgtaat-----------------actaccttgctgtcaagtt--taattgttgaggcttatt-----tattgaatgaagggaa--gaaattaaatagtcttactaattcttg-aattattcag---------------------------------
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GTGGGACAACTGAGGGAGGTATCGAATAAGGCACACAATGCTGAGCTGAAGTTGTTTTTGGAAGTAGAACTTGGCCCGgtaatgatgtgctggagctgctaccatttctttttctgttttttacttattgttgtctgttatggcttctagatgcaggatacttaactttgtttatctgtttgatacttatggttatgcaggatacttattgttgtctgttttatcatttatag
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 17
GTTGGACAAATACGAGAGGCATCTAACAAGGCAAACAATGCTGAGCTAAAGCTGTTTTTGGAAATAGAGCGTGGACCGgtaa-tactaccttgctgtcaagtttaattgttgaggcttatttattgaat-gaagggaagaaattaaatagtcttactaattcttgaattattcag
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GTCGGGCAGCTTAGGGAAGTCTCAAATAAGGCACACAATGCTGAGCTGAAGCTGTTTTTGGAAGTTGAACTTGGACCGgtaaatattggttttttatgtctcctatttcctctgttttttatgccttctagattttgagatgcttgtt--tctaattattacttccatag-----
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: GRMZM2G303655_T01 (Zea mays), 5'ss of exon 7
GTTGGACAAATACGAGAGGCATCTAACAAGGCAAACAATGCTGAGCTAAAGCTGTTTTTGGAAATAGAGCGTGGACCGgtaatactaccttgctgtcaagtttaattgttgaggcttatttattgaatgaagggaagaaattaaatagtc-ttactaattcttgaattattcag
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GTCGGGCAGCTTAGGGAAGTCTCAAATAAGGCACACAATGCTGAGCTGAAGCTGTTTCTGGAAGTTGAACTTGGACCGgtaaaatgttatttttatttgtcttttattttccctcttgtttatgccttctagattttgagatgcttggttgtttctaattatt-aattatatagMapped 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|124793727|gb|EH883406.1|EH883406EST: CTAAAGCTGTTTTTGGAAATAGAGCGTGGACCG GATGACCTTCCTATTCCTCCCCCAGAAAAAACTTCTGAGGATATCCTTCTT
genomic: CTAAAGCTGTTTTTGGAAATAGAGCGTGGACCGgtaatactac ... aattattcagGATGACCTTCCTATTCCTCCCCCAGAAAAAACTTCTGAGGATATCCTTCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGGACAAATACGAGAGGCATCTAACAAGGCAAACAATGCTGAGCTAAAGCTGTTTTTGGAAATAGAGCGTGGACCGgtaatactaccttgctgtcaagtttaattgttgaggcttatttattgaatgaagggaagaaattaaatagtcttactaattcttgaattattcag
- - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT