Sequence
atgc intronic sequence ATGC exonic sequenceGCGATAATTGATGCGGCTTCATATGTTCCACCTCCACCATCAGAAGAACAAAAGAAGAAAATAGTAAAGCTgtgagaaccaaccaaatcaaatccttttccatgattccattgttttaactctgaatccaaatcttgacgcggtgaattcttacattttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G62850.3 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G62850.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA17G14410.1 (Glycine max), 5'ss of exon 6
GCGATAATTGATGCGGCTTCATATGTTCCACCTCCACCATCAGAAGAACAAAAGAAGAAAATAGTAAAGCTgtgagaaccaaccaaatcaaatccttttccatgattccatt---gttttaactctgaatccaaatcttgacgcg---gtgaattcttacattttcag----------------------------------------------------
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GAAATCATTGATGCGGCATCTTATGTTCCGCCGCCTCCCTCAGAAGAGCAAAAGAAGAAAATTGCGAAGATgtaagagcacttctctttttatgttttctaatacttcaggttaaatacaatttcttattttgggtaccattttgcttgtggcttctattacactagaatggtgaagggcatgtaactgacagctgttaattaaatttgcacttttgaag
upper sequence: AT1G62850.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv02s0241g00090.t01 (Vitis vinifera), 5'ss of exon 7
GCGATAATTGATGCGGCTTCATATGTTCCACCTCCACCATCAGAAGAACAAAAGAAGAAAATAGTAAAGCTgtgagaac-caaccaaatcaaatccttttccatgattccattgttttaactctgaatccaaatcttgacgcggtgaattc--ttacattttcag------
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GCAATTATTGATGCTGCTTCATATGTCCCACCGCCCCCATCAGAAGAGCAGAAGAAAAAAATTGCCAAGTTgtaagtgttcatctgtatccgtgttttttaccttgcacagaaccattgcatctctgtcctaacgttaggctcctagcctaaattatctatttgattgtttMapped 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|125302958|gb|EL317043.1|EL317043EST: AAGAAAATAGTAAAGCT CGCTGCGAAAGCTGACAATAAACGACTTAAAAGCAAAAAAGTTCTGTCAGA
genomic: AAGAAAATAGTAAAGCTgtgagaacca ... acattttcagCGCTGCGAAAGCTGACAATAAACGACTTAAAAGCAAAAAAGTTCTGTCAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCGATAATTGATGCGGCTTCATATGTTCCACCTCCACCATCAGAAGAACAAAAGAAGAAAATAGTAAAGCTgtgagaaccaaccaaatcaaatccttttccatgattccattgttttaactctgaatccaaatcttgacgcggtgaattcttacattttcag
- - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA