Sequence
atgc intronic sequence ATGC exonic sequenceAGCTCTGCAAATACAAAGATCAGATCAAAAGGACTAGACCTGGTCCTGCTCTAGAAGCTATCAAAGCTCGTGCTATGAGAGTTCTCAAGCAAAAGAAGATgtcagtgttttctttctgcttcttctctcaatggacattgatgatatggattttaataccaactgtttccatttttccttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G04850.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G04850.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G33960.1 (Glycine max), 5'ss of exon 2
AGCTCTGCAAATACAAAGATCAGATCAAAAGGACTAGACCTGGTCCTGCTCTAGAAGCTATCAAAGCTCGTGCTATGAGAGTTCTCAAGCAAAAGAAGATgtcagtgttttctttctgcttcttctctcaatggacattgatgatatg-gattttaataccaactgtttccatttttccttag--------------------
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AGCTTAGTAGATATAAGGAGCAGATTAAGAAAACTAGACCTGGTCCTGCCCAGGAAGCTGTTAAAGCTAGAGCCATGAGAGTTCTTAAGCAAAAACGAATgtgagtttttctcatct--ttgtttgcttagtttat-ttgtcgtcgttcaagtttatttgtcattgttgacaaattgattgagccagttatggatcaaagatg
upper sequence: AT5G04850.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA20G33630.1 (Glycine max), 5'ss of exon 2
AGCTCTGCAAATACAAAGATCAGATCAAAAGGACTAGACCTGGTCCTGCTCTAGAAGCTATCAAAGCTCGTGCTATGAGAGTTCTCAAGCAAAAGAAGATgtcagtgttttctttctgctt---cttctctcaatggaca--ttgat-gatatggattttaataccaactgtttccatttttccttag------------
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AGCTTAGTAGATATAAAGAGCAGATTAAGAAAACTAGACCTGGTCCTGCCCAGGAAGCTGTTAAAGCTAGAGCCATGAGAGTTCTTAAGCAAAAACGAATgtgagtttgcttagtttattttgtcatcttttaattgacaaattgattgagccaaagttatagatcaaagatgggagtttattgcacgatctgtgttggg
upper sequence: AT5G04850.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv08s0007g02300.t01 (Vitis vinifera), 5'ss of exon 2
AGCTCTGCAAATACAAAGATCAGATCAAAAGGACTAGACCTGGTCCTGCTCTAGAAGCTATCAAAGCTCGTGCTATGAGAGTTCTCAAGCAAAAGAAGATgtcagtgttttctttctgcttcttctctcaatggacattgat-----gatatggattttaataccaactgtttccatttttccttag-------------
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AGCTTAGCAAATACAAAGAACAGATAAAGAGAACACGACCTGGTCCTGCTCAAGAAGCTGTTAAAGCTAGGGCCATGAGGGTTCTCAAGCAAAAAAGGATgtatgtgctcttttcccttctatcactttaaagttatttggtttgggaacatgatttatattgttgaggcccattatccccccttttagggtgggtgcggMapped 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|164130395|gb|ES113541.1|ES113541EST: GCAAAAGAAGAT GTATGAAGGACAACGTGACATGCTCTATAATCAGACTTTTAACCTTGATCA
genomic: GCAAAAGAAGATgtcagtgttt ... ttttccttagGTATGAAGGACAACGTGACATGCTCTATAATCAGACTTTTAACCTTGATCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCTCTGCAAATACAAAGATCAGATCAAAAGGACTAGACCTGGTCCTGCTCTAGAAGCTATCAAAGCTCGTGCTATGAGAGTTCTCAAGCAAAAGAAGATgtcagtgttttctttctgcttcttctctcaatggacattgatgatatggattttaataccaactgtttccatttttccttag
- - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG