Sequence
atgc intronic sequence ATGC exonic sequenceTCAGACGACTAAGGGAATTTGGATTGCTAGATGCGCTGGTATTGAGCCTTGCACCGTTGTGATGGATTTAGAGGGTACCGATGGGAGAGAGCGTGGTGAGgtgtgtaaccttggcccttttcatattcggttcttttaatatttagcatctcacgcccagttagtatttatttagcttttgcactaattgtgaatgactt...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G13870.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G02780.1 (Glycine max), 5'ss of exon 4
TCAGACGACTAAGGGAATTTGGATTGCTAGATGCGCTGGTATTGAGCCTTGCACCGTTGTGATGGATTTAGAGGGTACCGATGGGAGAGAGCGTGGTGAGgtgtgtaaccttggcc----cttttcatattcggttcttttaatatttagcatctcacgcccagttagtatttatttagcttttgcactaattgtgaatgactt
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TCAAACAACCAGAGGAATTTGGATGGCTAGATGTGTTGGGATAGAGCCTTGTACACTTGTGATGGATTTGGAGGGTACTGATGGAAGAGAACGTGGAGAGgtggttttttctcaccttaactttccttgaccattccggtcatgatctagagtctgttgccttttgcatttttatttatatcatatcttggcaatgcata----
upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G42650.1 (Glycine max), 5'ss of exon 5
TCAGACGACTAAGGGAATTTGGATTGCTAGATGCGCTGGTATTGAGCCTTGCACCGTTGTGATGGATTTAGAGGGTACCGATGGGAGAGAGCGTGGTGAGgtgtgtaaccttggcccttttcatattcggttcttttaat----atttagcatctcacgcccagttagtatttatttagcttttgcactaattgtgaatgactt
||| || || | ||||||||||| |||||||| | ||| || |||||||| || ||||||||||||| |||||||| ||||| ||||| ||||| |||||| | || | | | | | | | | | ||| | | ||| | | |||||||| | | || |
TCAAACAACCAGAGGAATTTGGATGGCTAGATGTGTTGGCATAGAGCCTTGTACACTTGTGATGGATTTGGAGGGTACTGATGGAAGAGAACGTGGAGAGgtggttttttcccaccttaattttcctttatcttcgtggtcatggtctagagtttgttgccttttgcatttttatttataccatatcttggcaatgcaca----
upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G01230.1 (Glycine max), 5'ss of exon 4
TCAGACGACTAAGGGAATTTGGATTGCTAGATGCGCTGGTATTGAGCCTTGCACCGTTGTGATGGATTTAGAGGGTACCGATGGGAGAGAGCGTGGTGAGgtgtgtaaccttggcccttttcatattcggttcttttaatatttagcatc-tcacg-cccagttagtatttatttagcttttgcactaattgtgaatgactt
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TCAAACAACCAAAGGAATCTGGATGGCTAGATGTGCTGGCATAGAGCCTTGTACACTTGTGATGGATTTGGAGGGTACAGATGGAAGAGAACGCGGAGAGgtgttttttttt--tttgttatacgttaactttctttaataatagccaaggtcacaattcagtctattgccaatatccaattgccatttgcatatatatata
upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G20610.1 (Glycine max), 5'ss of exon 4
TCAGACGACTAAGGGAATTTGGATTGCTAGATGCGCTGGTATTGAGCCTTGCACCGTTGTGATGGATTTAGAGGGTACCGATGGGAGAGAGCGTGGTGAGgtgtgtaaccttggcccttttcatattcggttcttttaatatttagca---tctcacgcccagttagtatttatttagcttttgcactaattgtgaatgactt
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TCAAACAACCAAAGGAATCTGGATGGCTAGATGTGCTGACATAGAGCCTTGTACACTTGTGATGGATTTGGAGGGTACAGATGGAAGAGAACGTGGAGAGgtgttttttttttttggttat-acgttaacttactttgataatagccaaggtcacaattcaatctattgccagtatccaatttccgtttgc-atatatattt-Mapped 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|116444534|gb|EG487126.1|EG487126EST: GCACCGTTGTGATGGATTTAGAGGGTACCGATGGGAGAGAGCGTGGTGAG GATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCA
genomic: GCACCGTTGTGATGGATTTAGAGGGTACCGATGGGAGAGAGCGTGGTGAGgtgtgtaacc ... atatggatagGATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCAGACGACTAAGGGAATTTGGATTGCTAGATGCGCTGGTATTGAGCCTTGCACCGTTGTGATGGATTTAGAGGGTACCGATGGGAGAGAGCGTGGTGAGgtgtgtaaccttggcccttttcatattcggttcttttaatatttagcatctcacgcccagttagtatttatttagcttttgcactaattgtgaatgactt
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