Sequence
atgc intronic sequence ATGC exonic sequenceTCCTGTTGCAGCAGCGGCACAAAAGTACAAACCAATTCAATCTGCTGTCCCTGGAACCACCTTGGGTCCAATTCAGATCAACGCTTTCGTCGGAGGAGAGgtataaacttaaaccaagatcagattctagaactttccaaaaattgcaatagtagacattctgctaaaagaatacattattaccacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G47450.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G47450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA12G01500.2 (Glycine max), 5'ss of exon 8
TCCTGTTGCAGCAGCGGCACAAAAGTACAAACCAATTCAATCTGCTGTCCCTGGAACCACCTTGGGTCCAATTCAGATCAACGCTTTCGTCGGAGGAGAGgtataaacttaaaccaagatcagattcta--gaactttccaaaaattgcaatagtagacatt--ctgctaaaagaatacattattaccacag
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TCCAGTGGCTGCATCTGCACAAAGATACAAACCAATACAATCTGCAGTTCCTGGAACTACCTTAGGGCCAATTCAAATTAATGCTTTCCTAGGAGGAGGGgtatgttattctgatagaaattaattcaaataaatgatccagtggctgctgta-tatgtattaatttgtttattttttcattactcatgcag
upper sequence: AT3G47450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA09G35850.1 (Glycine max), 5'ss of exon 8
TCCTGTTGCAGCAGCGGCACAAAAGTACAAACCAATTCAATCTGCTGTCCCTGGAACCACCTTGGGTCCAATTCAGATCAACGCTTTCGTCGGAGGAGAGgtataaacttaaaccaagatcagattcta--gaactttccaaaaattgcaata-gtagacattctgctaaaagaatacattattaccacag
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TCCAGTGGCTGCATCTGCACAAAGATACAAACCAATACAATCTGCAGTTCCCGGAACTACCTTAGGGCCAATTCAAATTAATGCTTTCCTAGGAGGAGGGgtatgtcattctgatagaaattaattcaaataaatggtccagtggctgctgttcatgtattaatttgtttattttttcattactcatgcag
upper sequence: AT3G47450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv16s0022g00320.t01 (Vitis vinifera), 5'ss of exon 8
TCCTGTTGCAGCAGCGGCACAAAAGTACAAACCAATTCAATCTGCTGTCCCTGGAACCACCTTGGGTCCAATTCAGATCAACGCTTTCGTCGGAGGAGAGgtataaac---ttaaaccaagatcagattctagaac-----tttccaaaaattgcaatagtagacattctgctaaaagaatacattattaccacag----
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TCCAGCTGCTGCAGCAGCACAAAGATACAAGCCGATACAATCTGCTGTTCCTGGAACTACCTTAGGTCCAATTCAAATTGATGCTTTCCTAGGTGGAGGGgtatatgccattctcatttgtgttttttcccatcacaagtgttcctttttgttcaattatctgtcttttatttggaagaatttttttttctcgtctgttgMapped 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|86059158|gb|DR354915.1|DR354915EST: CTGGAACCACCTTAGGTCCAATTCAGATCAACGCTTTCCTCGGAGGAGAG AAGTTGTATGACACACCGGGTGTGCACCTACACCACAGGCAAGCAGCTGTC
genomic: CTGGAACCACCTTGGGTCCAATTCAGATCAACGCTTTCGTCGGAGGAGAGgtataaactt ... attaccacagAAGTTGTATGACACACCGGGTGTGCACCTACACCACAGGCAAGCAGCTGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTGTTGCAGCAGCGGCACAAAAGTACAAACCAATTCAATCTGCTGTCCCTGGAACCACCTTGGGTCCAATTCAGATCAACGCTTTCGTCGGAGGAGAGgtataaacttaaaccaagatcagattctagaactttccaaaaattgcaatagtagacattctgctaaaagaatacattattaccacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA