Sequence
atgc intronic sequence ATGC exonic sequenceCGGTTTCCTACATCCTGCTGACAGTTAGCAGCTGGTTTTTGGCTGTTTCTTGGCTGTTTGCTCCGTACCTATTCAACCCTGCCGGATTTGAGTGGCAGAAgtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G07160.1 |
intron # | 45 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 45
lower sequence: LOC_Os03g02756.2 (Oryza sativa), 5'ss of exon 12
CGGTTTCCTACATCCTGCTGACAGTTAGCAGCTGGTTTTTGGCTGTTTCTTGGCTGTTTGCTCCGTACCTATTCAACCCTGCCGGATTTGAGTGGCAGAAgtaagtggt--gctatcttatttatatcatgttgagtgttgagtaacgtgtttctc-attgaacaacaataaaattatgctttcag
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CAGTTGGCTACATTTTGCTTTCCATAAGTAGCTGGTTTATGGCAGTTTCTTGGCTTTTTGCTCCATACATATTCAATCCATCTGGATTTGAATGGCAGAAgtaagctgctaagcattctatgcatgtgttactctgcgtaattatatttgaaattcgaattatcaggattaaaatacctctctcag
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 45
lower sequence: GLYMA20G38860.1 (Glycine max), 5'ss of exon 48
CGGTTTCCTACATCCTGCTGACAGTTAGCAGCTGGTTTTTGGCTGTTTCTTGGCTGTTTGCTCCGTACCTATTCAACCCTGCCGGATTTGAGTGGCAGAAgtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcag
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CACTCTCATATATTCTTTTGAGTATAAGCAGTTGGTTTATGGCTCTATCCTGGTTGTTTGCTCCATATTTATTCAACCCATCTGGATTTGAGTGGCAAAAgtaagtattatctatttatctttgt-attcttcctggcatgtctcatgagtcatgattattttccttcacggtgcttttttag
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 45
lower sequence: GLYMA10G44150.1 (Glycine max), 5'ss of exon 46
CGGTTTCCTACATCCTGCTGACAGTTAGCAGCTGGTTTTTGGCTGTTTCTTGGCTGTTTGCTCCGTACCTATTCAACCCTGCCGGATTTGAGTGGCAGAAgtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcag--
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CACTCTCATATATTCTTTTGAGTATAAGCAGTTGGTTTATGGCTCTATCCTGGTTGTTTGCTCCATATTTATTCAACCCGTCTGGATTTGAGTGGCAAAAgtaagta--------ttatctat-ttatcttgaactttgacaggcatgtctcatgattattttccctcacacagtgtttttttag
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 45
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 5'ss of exon 43
CGGTTTCCTACATCCTGCTGACAGTTAGCAGCTGGTTTTTGGCTGTTTCTTGGCTGTTTGCTCCGTACCTATTCAACCCTGCCGGATTTGAGTGGCAGAAgtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcag
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CACTATCGTACATTCTTCTTAGCATTAGCAGTTGGTTCATGGCTCTTTCTTGGCTTTTTGCTCCCTATTTGTTCAATCCATCTGGTTTTGAGTGGCAGAAgtaagtatcatttttctaattttctctctc-----atggatttgctcatgttttattaaccatttgttttaccc--cttttag
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 45
lower sequence: PP1S18_300V6.2 (Physcomitrella patens), 5'ss of exon 24
CGGTTTCCTACATCCTGCTGACAGTTAGCAGCTGGTTTTTGGCTGTTTCTTGGCTGTTTGCTCCGTACCTATTCAACCCTGCCGGATTTGAGTGGCAGAAgtaagtggt-gctatcttatttatatcatgttga-gtgttgagtaac-gtgtttctcattgaacaacaataaaattatgctttcag------------------------------------------------------------------
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CTGCCAGCTACATTCTTCTCACATTTAGCAGTTGGTTTCTGGCTCTTTCATGGTTATTTGCTCCTTTCGTCTTCAATCCTTCAGGATTTGAATGGCAGAAgtaagaaaccacgaacattcttgacctttttcgatgcgtttttcatttgggtccttcgattgaca-tggttcctttccgacttcagtcttaaaagtgggtggcctattgacttcgggcaccaggttctgattttcttcctcaataaattcagMapped 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|116471787|gb|EG514379.1|EG514379EST: GGATTTGAGTGGCAGAA AGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGG
genomic: GGATTTGAGTGGCAGAAgtaagtggtg ... atgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGGTTTCCTACATCCTGCTGACAGTTAGCAGCTGGTTTTTGGCTGTTTCTTGGCTGTTTGCTCCGTACCTATTCAACCCTGCCGGATTTGAGTGGCAGAAgtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT