Sequence
atgc intronic sequence ATGC exonic sequencegtatgtaagttcctcctttttgtaccttcaccatgtgctactgagcatgtatctaagcttttgattttttctctcgtccactactcttttttactacatgctctaatatatcttgttaattgatcctccataattaagttttcacgcaacaacctgaattttcttatattaaattatttttctttgcccagATGATCAACCATCGAAGAAAGGAGCTGCAGAATATGATAAAAGATTGGGACCTGCTGGTCTTGCTTTACATTATGCAAATATAATTGTGCAGATTGACAC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G08660.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G08660.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA06G16680.1 (Glycine max), 3'ss of exon 6
gtatgtaagttcctcctttttgtaccttcaccatgtgctactgagcatgtatctaagcttttgattttttctctcgtccactactcttttttactacatgctctaatatatcttgttaattgatcctccataattaagttttcacgcaaca-acctgaattttcttatattaaattatttttctttgcccagATGATCAACCATCGAAGAAAGGAGCTGCAGAATATGATAAAAGATTGGGACCTGCTGGTCTTGCTTTACATTATGCAAATATAATTGTGCAGATTGACAC
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-------------------------------------------------------------------------------------ggagtgggaggggtgggattatgtttatattttcatgatcttat-caatgaaatctatattctgcgtacctgtaatgttgtttatc----catgggcacctgc--agATGACCACAAACCATTCATTGGACACATGAGCAATCGCCAAAGATTGGGCCCTGCAGGCCTTGCTTTGCATTATGCAAATATAGTGCTTCAAATTGATAC
upper sequence: AT5G08660.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA04G38370.1 (Glycine max), 3'ss of exon 7
gtatgtaagttcctcctttttgtaccttcaccatgtgctactgagcatgtatctaagcttttgattttttctctcgtccactactcttttttactacatgctctaatatatcttgttaattgatcctccataattaagttttcacgcaaca-acctgaattttcttatattaaattatttttctttgcccagATGATCAACCATCGAAGAAAGGAGCTGCAGAATATGATAAAAGATTGGGACCTGCTGGTCTTGCTTTACATTATGCAAATATAATTGTGCAGATTGACAC
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-------------------------------------------------------------------------------attagaaaggagaaaaaggtgtgtttatat-tctcatgatctcatc------aatgaaatctatattctgcatacctgtaatgttgtttatc----catgggcacctgc--agATGACCCCAAACCATTCATTGGACGCATGAGCAATCGCCAAAGATTGGGCCCTGCAGGCCTTGCTTTGCATTATGCAAATATAGTGCTTCAAATTGATAC
upper sequence: AT5G08660.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv07s0031g02970.t01 (Vitis vinifera), 3'ss of exon 7
gtatgtaagttcctcctttttgtaccttcaccatgtgctactgagcatgtatctaagcttttgattttttctctcgtccactactcttttttactacatgctctaatatatcttgttaattgatcctccataattaagttttcacgcaacaacctgaattttcttatattaaattatttttctttgcc--cagATGATCAACCATCGAAGAAAGGAGCTGCAGAATATGATAAAAGATTGGGACCTGCTGGTCTTGCTTTACATTATGCAAATATAATTGTGCAGATTGACAC
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--------------------------------------------------------------------------------ttgtccttaccta--aaaggatctag---gtaatgtcaatagagcc-----agt--ggttcttataaaagaaa-taaggcatctgataatgtttccttatgggcaacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttcacgcaacaacctgaattttcttatattaaattatttttctttgcccagATGATCAACCATCGAAGAAAGGAGCTGCAGAATATGATAAAAGATTGGGACCTGCTGGTCTTGCTTTACATTATGCAAATATAATTGTGCAGATTGACAC
ttatttttctttgccc CT-rich tract
aacctgaattttctta 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 |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtaagttcctcctttttgtaccttcaccatgtgctactgagcatgtatctaagcttttgattttttctctcgtccactactcttttttactacatgctctaatatatcttgttaattgatcctccataattaagttttcacgcaacaacctgaattttcttatattaaattatttttctttgcccagATGATCAACCATCGAAGAAAGGAGCTGCAGAATATGATAAAAGATTGGGACCTGCTGGTCTTGCTTTACATTATGCAAATATAATTGTGCAGATTGACAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT