Sequence
atgc intronic sequence ATGC exonic sequenceGGCAAATGGCTTCCAACTCTGCGCACTCTTGTTTCAAAAATAAACAGCACGTTTAGTCGTAACTTTCAAGAAATGGCTGTTGCTGGAGAAGTTTCACTTGgtatgtgtggcagttccttttttgtgttatcacactgttatttgtactattttcagatggcataccaatctgtaccaaatttcctgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g51790.2 |
intron # | 23 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g51790.2 (Oryza sativa), 5'ss of exon 23
lower sequence: GRMZM2G440916_T01 (Zea mays), 5'ss of exon 23
GGCAAATGGCTTCCAACTCTGCGCACTCTTGTTTCAAAAATAAACAGCACGTTTAGTCGTAACTTTCAAGAAATGGCTGTTGCTGGAGAAGTTTCACTTGgtatgtgtggcagttccttttttgtgttatcacactgttatttgtactattttcagatggcataccaatc--tgtaccaaa--tttcctgcag
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GGTAAATGGCTTCCGACTCTGCGGATTCTTGTTTCAAAAATAAACGACACATTCAGTCGTAACTTTCAAGAAATGGCAGTCGCTGGAGAAGTTTCACTGGgtatgtatga-----------ttttgtttcttcgccattgtttgttttgttt---gataacaccctaattgtcgtgtcaaacctttcttgcag
upper sequence: LOC_Os05g51790.2 (Oryza sativa), 5'ss of exon 23
lower sequence: GLYMA20G34020.1 (Glycine max), 5'ss of exon 24
GGCAAATGGCTTCCAACTCTGCGCACTCTTGTTTCAAAAATAAACAGCACGTTTAGTCGTAACTTTCAAGAAATGGCTGTTGCTGGAGAAGTTTCACTTGgtatgtgtggcagttccttttttgtgttatcacactgttatttgtactattttcagatggcataccaatctgtaccaaatttcctgcag
|| |||||||||||||| || | | ||||| |||| ||||| || || ||| ||| || ||||| |||||||||||||||||||||||||| ||| ||| ||| | || | | || || ||| | || | | || | ||| || || || | | || |||
GGAAAATGGCTTCCAACATTGAGAAACCTTGTGGCAAAGATAAATGAAACATTCAGTTTTAATTTCCAAGAGATGGCTGTTGCTGGAGAAGTTTCACTAGgtctgt----cagatggcaattaacatgaacatgttgg-gtttttcttactcttttatc-ctcacctat--gtttcatgtcttct-cag
upper sequence: LOC_Os05g51790.2 (Oryza sativa), 5'ss of exon 23
lower sequence: Vv13s0064g00180.t01 (Vitis vinifera), 5'ss of exon 23
GGCAAATGGCTTCCAACTCTGCGCACTCTTGTTTCAAAAATAAACAGCACGTTTAGTCGTAACTTTCAAGAAATGGCTGTTGCTGGAGAAGTTTCACTTGgtatgtgtggcagttccttt-------tttgtgttatcacactgttatttg--tactattttcagatggcataccaatctgtaccaaatttcctgcag
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GAAAATTGGCTTACCACATTGAGAAACCTTGTTGCTCAAATAAATGAGACCTTTAGTCGAAACTTCCAAGATATGGCTGTTGCTGGAGAAGTTTCATTGGgtattcattatagttccttcaataaaatttattttttgagaagactgcttgcttattcttttgatttgatgtttctttttttttctcag---------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|87019115|gb|CI297316.1|CI297316EST: GTTTAGTCGTAACTTTCAAGAAATGGCTGTTGCTGGAGAAGTTTCACTTG ATGAACATGGTCTTGATTTTGAGCAATATGGCATCCTTATAAAGGTCAAGT
genomic: GTTTAGTCGTAACTTTCAAGAAATGGCTGTTGCTGGAGAAGTTTCACTTGgtatgtgtgg ... tttcctgcagATGAACATGGTCTTGATTTTGAGCAATATGGCATCCTTATAAAGGTCAAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCAAATGGCTTCCAACTCTGCGCACTCTTGTTTCAAAAATAAACAGCACGTTTAGTCGTAACTTTCAAGAAATGGCTGTTGCTGGAGAAGTTTCACTTGgtatgtgtggcagttccttttttgtgttatcacactgttatttgtactattttcagatggcataccaatctgtaccaaatttcctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT