Sequence
atgc intronic sequence ATGC exonic sequenceTGGCAAGAAATAAAACCTAAGCCTGGTGCCATGTGGCCTACAGCTAGAAGTGGCTTCCAGTTTTTTGTTTATCAAGATGAGgttagtttacaatgcacatgtctatatcatattctttaagtccaagcataaccatttacttataggaaagccttttatgctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G50310.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G50310.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA04G36770.1 (Glycine max), 5'ss of exon 9
TGGCAAGAAATAAAACCTAAGCCTGGTGCCATGTGGCCTACAGCTAGAAGTGGCTTCCAGTTTTTTGTTTATCAAGATGAGgttagttta-caatgcacatgtctatatca---tattctttaagtccaagcataaccatttacttataggaa--agccttttatgctgcag---------
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TGGCAAGAAATAAAGCCTAAGCCTGGAGCAATGTGGCCAACTGCACGTAGTGGTTTTCAATTATTTGTTTACCAAGATGACgtgagtaaaatactggtctcccttacatgaagctaatttttgttttaaattacttgtatttatgtgttagaactggtatcataaacagcaagaaagattg
upper sequence: AT5G50310.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv17s0000g10130.t01 (Vitis vinifera), 5'ss of exon 9
TGGCAAGAAATAAAACCTAAGCCTGGTGCCATGTGGCCTACAGCTAGAAGTGGCTTCCAGTTTTTTGTTTATCAAGATGAGgttagtttacaatgcacatgtctatatcatattctttaagtccaagcataaccatttacttataggaaagccttttatgctgcag------------------
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TGGCAAGAAATAAAACCTAGGCTTGGTTCCATGTGGCCAAGTGCCAGGAGTGGTTTTCAGTTTTTTGTGTTCCAAGATGAGgtgggtg-atatagagatcctctttattatggttgtt--gtggaatattctctgcttatattgaacttagtttctaatttaaatattgcatgtgtttattggtMapped 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|124885966|gb|EH964868.1|EH964868EST: GCTAGAAGTGGCTTCCAGTTTTTTGTTTATCAAGATGAG ATATTCTTATATGGTGGTTATTCAAAAGAAGTCTCATCCGAGAAGAGCTCT
genomic: GCTAGAAGTGGCTTCCAGTTTTTTGTTTATCAAGATGAGgttagtttac ... tatgctgcagATATTCTTATATGGTGGTTATTCAAAAGAAGTCTCATCCGAGAAGAGCTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGCAAGAAATAAAACCTAAGCCTGGTGCCATGTGGCCTACAGCTAGAAGTGGCTTCCAGTTTTTTGTTTATCAAGATGAGgttagtttacaatgcacatgtctatatcatattctttaagtccaagcataaccatttacttataggaaagccttttatgctgcag
- - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG