Sequence
atgc intronic sequence ATGC exonic sequencegtgagttcgctagttttatgaatctacgaaaagttgtgattacttatatacatatattcttttatgtaagtgttgttttgtggcaaatgtatgtagTCAGATTGCTTCTATAATGCTGGATGGACAGATGATATAAGGGTAGTTCTTGATTATCTTCAACACAAATACCCGAGGGCTCCTCTCTTTGCTATTGGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G34340.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G34340.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os01g65070.1 (Oryza sativa), 3'ss of exon 5
--gtgagttcgctagttttatgaatctacgaaaagttgtgatta-cttatatac--atatattcttttatgtaagtgttgttttgtggcaaatgtatgtagTCAGATTGCTTCTATAATGCTGGATGGACAGATGATATAAGGGTAGTTCTTGATTATCTTCAACACAAATACCCGAGGGCTCCTCTCTTTGCTATTGGCA
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atactgcagcaagaagtttatgaggcaccgaattttaacaaatgtcttatttaggaataagaaccatcactcacctcataatatttatttcccttg-gcagTCAGATTGCCTCTACAATGCTGGATGGACAGAAGATCTCCGAGAAGTCATTAATTATCTCCATCACAAATATCCAAAGGCTCCAATGCTCTGTGTTGGTA
upper sequence: AT1G34340.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os05g35730.2 (Oryza sativa), 3'ss of exon 5
gtgagttcgctagttttatgaatcta---cgaaaagttgtgattacttatatacatatattcttttatgtaagtgttgttttgtggcaaatgtat----gtagTCAGATTGCTTCTATAATGCTGGATGGACAGATGATATAAGGGTAGTTCTTGATTATCTTCAACACAAATACCCGAGGGCTCCTCTCTTTGCTATTGGCA
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--gactccaggaaaattatgtcccagaatcatcaatttggtagcagttgatgaaaaatgttcaggtg-gtacttgttcctcaacctagtatttattcttgcagTCTGATTGCTTCTACAATGCTGGATGGACAGAAGATTTCCGTGAGATTGTCAATTACCTTCATCAGAAGTATCCACAGGCTCCATTATTTGCTGTTGGGAMapped 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|116475911|gb|EG518503.1|EG518503EST: GGAATGTTGTTATTAGCAACCATAGAGGATTGGGAGGAGTTTCTGTTACT TCAGATTGCTTCTATAATGCTGGATGGACAGATGATATAAGGGTAGTTCTT
genomic: GGAATGTTGTTATTAGCAACCATAGAGGATTGGGAGGAGTTTCTGTTACTgtgagttcgc ... atgtatgtagTCAGATTGCTTCTATAATGCTGGATGGACAGATGATATAAGGGTAGTTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttatatacatatattcttttatgtaagtgttgttttgtggcaaatgtatgtagTCAGATTGCTTCTATAATGCTGGATGGACAGATGATATAAGGGTAGTTCTTGATTATCTTCAACACAAATACCCGAGGGCTCCTCTCTTTGCTATTGGCA
tatacatatattcttt TA-rich tract
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttcgctagttttatgaatctacgaaaagttgtgattacttatatacatatattcttttatgtaagtgttgttttgtggcaaatgtatgtagTCAGATTGCTTCTATAATGCTGGATGGACAGATGATATAAGGGTAGTTCTTGATTATCTTCAACACAAATACCCGAGGGCTCCTCTCTTTGCTATTGGCA
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