Sequence
atgc intronic sequence ATGC exonic sequenceGATCCAAATTCGAAGCATTTAGGAACGACCGTGTGGGATGCGTCCATGGTGTTTGCCAAATATCTGgtataaatagatctttcgtatcccgcttaaattctaggattctcctcagagattatcttctttatactgtgtaatttagattggtaacttagggctgtta...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G08125.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G08125.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv06s0061g00490.t01 (Vitis vinifera), 5'ss of exon 5
GATCCAAATTCGAAGCATTTAGGAACGACCGTGTGGGATGCGTCCATGGTGTTTGCCAAATATCTGgtataaatagatctttcgtatcccgcttaaattctaggattctcctcagagattatcttctttatactgtgtaatttagattggtaacttagggctgtta----
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GATCCCAATTCGAAGCATTTAGGAACTACGGTTTGGGATGCATCAATGGTATTTGTGAAATTTCTGgta-atgtctattattcatttgagaattttagcattattttcatc-catgggttaccaattcaaaattgt-tgatct-gttgagttgtgttcaatttctatgca
upper sequence: AT1G08125.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv03s0017g01120.t01 (Vitis vinifera), 5'ss of exon 5
GATCCAAATTCGAAGCATTTAGGAACGACCGTGTGGGATGCGTCCATGGTGTTTGCCAAATATCTGgtataaatagatctttcgtatcccgcttaaattctaggattctcctcagagattatcttctttatactgtgtaatt-tagattggtaacttagggctgtta-
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GATCCCAATTCGAAGCATTTAGGAACTACGGTTTGGGATGCATCAATGGTATTTGTGAAATTTCTGgta-atgtctattattcatttgagaattttagcattattttcatc-catgggttaccaattcaaaattgttgatctgttgagctgtgtttaatttctatgga
upper sequence: AT1G08125.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ35393 (Selaginella moellendorffii), 5'ss of exon 2
GATCCAAATTCGAAGCATTTAGGAACGACCGTGTGGGATGCGTCCATGGTGTTTGCCAAATATCTGgtataaatagatctttcgtatcccgcttaaattctaggattctcctcagagattatcttctttatactgtgtaatttagattggtaacttagggctgtta
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GATCCAAATTCCAAGCACGTTGGAACAACCGTGTGGGACTCGTCGGTGGTGTTTGCCAAATTCCTGgtt--ggttggtctagaatgcttcg------------gcctctgattagacgatgtgttccgttgtgtgtgtgattttcag-------------------
upper sequence: AT1G08125.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ17374 (Selaginella moellendorffii), 5'ss of exon 2
GATCCAAATTCGAAGCATTTAGGAACGACCGTGTGGGATGCGTCCATGGTGTTTGCCAAATATCTGgtataaatagatctttcgtatcccgcttaaattctaggattctcctcagagattatcttctttatactgtgtaatttagattggtaacttagggctgtta
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GATCCAAATTCCAAGCACGTTGGAACAACCGTGTGGGACTCGTCGGTGGTGTTTGCCAAATTCCTGgtt--ggttggtctagaatgcttcg------------gcctctgattagaccatgtgttccgttgtgtgtgtgattttcag-------------------Mapped 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|152035663|gb|BP860254.2|BP860254EST: ATTTAGGAACGACCGTGTGGGATGCGTCCATGGTGTTTGCCAAATATCTG GGGAAAAATAGCAGGAAGGGAAGGTTTAGTTCATCTAAACTGAAAGGGAAA
genomic: ATTTAGGAACGACCGTGTGGGATGCGTCCATGGTGTTTGCCAAATATCTGgtataaatag ... atatttacagGGGAAAAATAGCAGGAAGGGAAGGTTTAGTTCATCTAAACTGAAAGGGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATCCAAATTCGAAGCATTTAGGAACGACCGTGTGGGATGCGTCCATGGTGTTTGCCAAATATCTGgtataaatagatctttcgtatcccgcttaaattctaggattctcctcagagattatcttctttatactgtgtaatttagattggtaacttagggctgtta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atcccgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctcctc