Sequence
atgc intronic sequence ATGC exonic sequenceGAGGGTCCGTGGTGGTAATGGCTGCAAGATTGGTGATGAAAGTGGCAGCTTgtgagttttttttggtgtctttatatccttcctctgctttttagtacaagagagacagaaacagagcagctctgttttagactttctgaaactgtttttgtctgtgatgattaattaaaaag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G53900.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G53900.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G35490.2 (Glycine max), 5'ss of exon 1
-------------------------------------------------GAGGGTCCGTGGTGGTAATGGCTGCAAGATTGGTGATGAAAGTGGCAGCTTgtgagttttttttggtgtctttatatccttcctctgctttttagtacaagagagacagaaacagagcagctctgttttagactttctgaaactgtttttgtctgtgatgattaattaaaaag
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TTCAACCAATAACCTCTTACCTCAACTGGGTCTTGTCCATTTCATACAGGAGAGTCCGAGGTGGCAATGGCTGCAAGATTGGAGATGATAATGGCAGCTTgtaagtctctctctagctattcatgt--------tgcaatttaatttggtagctatttattttaag-------gtttcaaaccgctaggatctgccta-----gtgatagg-ggttgagac-
upper sequence: AT5G53900.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G35490.1 (Glycine max), 5'ss of exon 2
GAGGGTCCGTGGTGGTAATGGCTGCAAGATTGGTGATGAAAGTGGCAGCTTgtgagttttttttggtgtctttatatccttcctctgctttttagtacaagagagacagaaacagagcagctctgttttagactttctgaaactgtttttgtctgtgatgattaattaaaaag
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GAGAGTCCGAGGTGGCAATGGCTGCAAGATTGGAGATGATAATGGCAGCTTgtaagtctctctctagctattcatgt--------tgcaatttaatttggtagctatttattttaag-------gtttcaaaccgctaggatctgccta-----gtgatagg-ggttgagac-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|164086056|gb|ES098445.1|ES098445EST: AGATTGGTGATGAAAGTGGCAGCTT GATGTTGATGTGGGAAGATGGGTTTTGTGGTGGAGGAAGAAAGTGAAGATC
genomic: AGATTGGTGATGAAAGTGGCAGCTTgtgagttttt ... aattaaaaagGATGTTGATGTGGGAAGATGGGTTTTGTGGTGGAGGAAGAA-GTGAAGATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGGGTCCGTGGTGGTAATGGCTGCAAGATTGGTGATGAAAGTGGCAGCTTgtgagttttttttggtgtctttatatccttcctctgctttttagtacaagagagacagaaacagagcagctctgttttagactttctgaaactgtttttgtctgtgatgattaattaaaaag
- - - - TGGTGG
- - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - GCAGCT