Sequence
atgc intronic sequence ATGC exonic sequenceTGGTGATCTATTGATGGAGCTCGGTGCTGGTGTAGAGTTGGCGACGGCTGCAGTTCCACATCTTTTTCTTCCACTGGCTTGTGCTGCTAATGTTGTTAAGgtagttttatcatcttttatcactcataattgctattcgatttcaatgttattgttggtctttgatttttgtttttgtatcaatcatttgttttatcacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G49820.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G49820.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G00580.1 (Glycine max), 5'ss of exon 2
TGGTGATCTATTGATGGAGCTCGGTGCTGGTGTAGAGTTGGCGACGGCTGCAGTTCCACATCTTTTTCTTCCACTGGCTTGTGCTGCTAATGTTGTTAAGgt--agttt---tatcatcttttatc-----actcat-aattgctattcgatttcaatgttattgttggtctttgatttttgtttttgtatcaatcatttgttttatcacag
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TGGTGATCTTCTAATGGAGTTGGGTGCTGGAGTTGAACTCGCAACTGCTGCAGTGCCGCATCTCTTTCTTCCATTGGCTTGTGCTGCTAATGTACTCAAGgttaggtttgtttgttgacttctttctgccgactcaccaactgctaatgaactctgcagtgcaagctttttttttaatttttttttcatttctgctctcag-----------
upper sequence: AT5G49820.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 3
TGGTGATCTATTGATGGAGCTCGGTGCTGGTGTAGAGTTGGCGACGGCTGCAGTTCCACATCTTTTTCTTCCACTGGCTTGTGCTGCTAATGTTGTTAAGgtagt-tttatcatctttta--------tcactcat--aattgctattcgatttcaatgttattgttggtctttg-atttttgtttttgtatcaat-catttgttttatcacag----------------------------------
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AGGTGATCTTCTCATGGAGTTGGGTGCTGGAGTTGAACTCGCTACTGCTGCAGTGCCGCATCTCTTTCTTCCATTGGCTTGTGCTGCTAATGTACTCAAGgttttactcattacttctttctttctgctcactcattcacttatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatcaactcagcagtgcagccttatttcttcatttctgctctcag
upper sequence: AT5G49820.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv12s0035g01870.t01 (Vitis vinifera), 5'ss of exon 5
TGGTGATCTATTGATGGAGCTCGGTGCTGGTGTAGAGTTGGCGACGGCTGCAGTTCCACATCTTTTTCTTCCACTGGCTTGTGCTGCTAATGTTGTTAAGgtagttttatcatcttttatcactcataattgctattcgatttcaatgttattgttggtctttgatttttgtttttgtatcaatcatttgttttatcacag
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GGGTGATCTCCTTATGGAGTTGGGTGCTGGGGTAGAGTTGGCAACTGCAGCTGTTCCACACCTTTTTCTGCCTTTGGCTTGTGCTGCAAATGTTGCCAAG-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|86038682|gb|DR334437.1|DR334437EST: CAGTTCCACATCTTTTTCTTCCACTGGCTTGTGCTGCTAATGTTGTTAAG AATGTTGCAGCAGTAACATCAACGTCTACTCGTACACCGATCTATAAAGCC
genomic: CAGTTCCACATCTTTTTCTTCCACTGGCTTGTGCTGCTAATGTTGTTAAGgtagttttat ... tttatcacagAATGTTGCAGCAGTAACATCAACGTCTACTCGTACACCGATCTATAAAGCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTGATCTATTGATGGAGCTCGGTGCTGGTGTAGAGTTGGCGACGGCTGCAGTTCCACATCTTTTTCTTCCACTGGCTTGTGCTGCTAATGTTGTTAAGgtagttttatcatcttttatcactcataattgctattcgatttcaatgttattgttggtctttgatttttgtttttgtatcaatcatttgttttatcacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT