Sequence
atgc intronic sequence ATGC exonic sequenceTGGACCTGTCTACAAAGCTCAAATGTCTACTGGTGAGATCGTGGCTGTGAAAGTTCTAGCCACTGATTCTAAACAGGGCGAAAAAGAGTTTCAGACAGAGgtaagatatatctatggattcatttccgaagaacaagttagtgtgtaaaacatgtagcattaggcagacttttaagcattacaataggctttctgaaatc...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G54590.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G54590.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA13G36140.1 (Glycine max), 5'ss of exon 3
TGGACCTGTCTACAAAGCTCAAATGTCTACTGGTGAGATCGTGGCTGTGAAAGTTCTAGCCACTGATTCTAAACAGGGCGAAAAAGAGTTTCAGACAGAGgt-aagata-tatctatggattcatttccgaagaacaagttagtgtgtaaaacatgtagcattaggcagacttttaagcattacaataggctttctgaaatc
||| ||||| || |||||||| ||||||||||| |||| ||||| || |||||||| || ||| ||||||| || || || ||||| |||||||||||||| |||||| || | | ||| ||| | ||| || | || | || || | || | | | | || | |||| ||| | ||
TGGTCCTGTATATAAAGCTCAGATGTCTACTGGCGAGACTGTGGCAGTCAAAGTTCTTGCAACTAATTCTAAGCAAGGGGAGAAAGAATTTCAGACAGAGgtgaagataataatttttcattactttggggtgaataaaagtat-tgatgaccacatatccttttggaaaatcaaaacatgaaaaatattatttttactat-
upper sequence: AT5G54590.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G34410.1 (Glycine max), 5'ss of exon 3
TGGACCTGTCTACAAAGCTCAAATGTCTACTGGTGAGATCGTGGCTGTGAAAGTTCTAGCCACTGATTCTAAACAGGGCGAAAAAGAGTTTCAGACAGAGgt-aagata-tatctatggattcatttccgaagaacaagttagtgtgtaaaacatgtagcattaggcagacttttaagcattacaataggctttctgaaatc
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TGGTCCTGTATATAAAGCTCAGATGTCTACTGGCGAGACTGTTGCAGTTAAAGTTCTTGCAACTAATTCTAAGCAAGGGGAGAAAGAATTTCAGACAGAGgtgaagataataatttctcattactttgagatgcatagaagtat-tgttagctacatatcattttgaaaaatca-aaacacgagaaatacgattttactataMapped 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|125088738|gb|EL147365.1|EL147365EST: AAGTTCTAGCCACTGATTCTAAACAGGGCGAAAAAGAGTTTCAGACAGAG GTTATGTTATTGGGAAGGTTGCATCACCGTAACCTAGTGAA
genomic: AAGTTCTAGCCACTGATTCTAAACAGGGCGAAAAAGAGTTTCAGACAGAGgtaagatata ... atcttttcagGTTATGTTATTGGGAAGGTTGCATCACCGTAACCTAGTGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGACCTGTCTACAAAGCTCAAATGTCTACTGGTGAGATCGTGGCTGTGAAAGTTCTAGCCACTGATTCTAAACAGGGCGAAAAAGAGTTTCAGACAGAGgtaagatatatctatggattcatttccgaagaacaagttagtgtgtaaaacatgtagcattaggcagacttttaagcattacaataggctttctgaaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaagaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtaaaaca