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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaacagttcctaagatgcatcattttctaacacatgcatagaaacagacatgttttgggtgcatacatgttctgcaagtgtcttttcttggctt...

Basic information

species Oryza sativa
transcript LOC_Os01g23610.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G145595_T02 (Zea mays), 5'ss of exon 4
TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaacagttcctaagatgcatcattttctaa-cacatgcatagaaa---cagacatgtt--ttgggtgcatacatgttctgcaagtgtcttttcttggctt
||||||||||||||||||||| ||||| ||||||||||| || ||||| |||||||||||||| |||||||||||||||||||| ||||| |||||||||||| ||||||| | | | ||||||| ||| |||||| ||| | | | |||| || | || ||| | | | | |
TGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGATGTATACACAGCTCTAGGAAGTGAGgtatatgaacaatcattcaagc-catcattgcttaaatacatgcttagggagtctaatcgtgttagttattttagcgaatattcctctgtcatatatcatg-----

upper sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA15G15310.1 (Glycine max), 5'ss of exon 5
TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaacagttcctaagatgcatcattttctaacacatgc--atagaaacagacatgttttgggtgcatacat--gttctgcaagtgtcttttcttggctt-------------------------------------------------------------------------------------------
|||||| ||||| ||| | |||||||| ||||| || || || ||||| ||||| ||||| || ||||||||||||||||| ||||| || |||||||||||| | || || | ||| || |||| || | | || | | | | | ||| ||| | ||| | | ||| || | |
TGCACTCAAACTGGAGACTGTTCCTGATTGGATAGCAATTGTAGGAAGTGGTTATATTGGCCTTGAATTCAGTGATGTATATACGGCCCTTGGAAGTGAGgta---gtacttctcttctgatatatttttttttatcctttctcaattgtattttgttcatgagaagaactgacaatagttttccaatttttcttttatgacgtttgaaagttttttatattatctcattgtttgaaaagttagaaacctaatttgtgcagaagagatatagttggtaataatggtactctgcag

upper sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA07G37050.2 (Glycine max), 5'ss of exon 5
TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaacagttcctaagatgcatcattttctaacacatgcatagaaacagacatgttttgggtgcatacatgttctgcaagtgtcttttcttggctt-
||||| ||||| || || |||||||| ||||| || || || ||||| || || ||||| || ||||||||||||||||| || || || |||||||||||| | || || | || |||| | | | | | || | || | | | | ||| | |
CGCACTCAAACTGGAATCTGTTCCTGATTGGATAGCAATTGTAGGAAGTGGATATATTGGTCTTGAATTCAGTGATGTATATACAGCACTTGGAAGTGAGgta-gcacatctttgtgaattttgatactttttctttctcttttcattaccttttgttcttgagaaatatttacaaataatcaatcctatcatttgacatc

upper sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA17G03560.1 (Glycine max), 5'ss of exon 5
TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaacagttcctaagatgcatcattttctaacacatgcatagaaacagacatgttttgggtgcatacatgttctgcaagtgtcttttcttggctt--------
||||| ||||| ||||| |||||||| ||||| || || || ||||| || || ||||| || ||||||||||||||||| || || || |||||||||||| | ||| | | ||| | ||| | | ||| | | | || || || | ||| ||| | |
CGCACTCAAACTGGAGTCTGTTCCTGATTGGATAGCAATTGTAGGAAGTGGATATATTGGTCTTGAATTCAGTGATGTATATACAGCACTTGGAAGTGAGgta---gcaca-tctttgtgat--actgtttctttcttttttcatt--accttttgttcttgataaatatttataaataatcgatcccttcatttgacatcagaaata

upper sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 5
lower sequence: AT3G16950.1 (Arabidopsis thaliana), 5'ss of exon 5
TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgta-catgaacagttcctaagatgcatcattttctaacacatgcatagaaacagacatgttttgggtgcatacatgttctgcaagtgtcttttcttggctt--
||| | ||| | ||||| || ||||| |||||||| || || ||||| ||||| ||||| || || ||||||||||| ||||| ||||| |||||||||||| ||||| | || | || | | || || | | | | | ||| | | | | | | || || || ||
TGCTTTGAAATTAGAGTCTGTCCCTGAGTGGATTGCAATTGTAGGAAGTGGTTATATTGGTCTTGAGTTCAGTGATGTTTACACAGCTCTTGGAAGTGAGgtaacatgatgtttctgtactaatgatattactttagtacg-actttgtgat-gttgtgtccttg-tacttgagattgtaataactgcaattagcaatgttct

upper sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 5
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 5'ss of exon 5
TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaacagttcctaagatgcatcattttctaacacatgcatagaaaca-gacatgttttgggtgcatacatgttctgcaagtgtcttttcttggctt------
|||| | ||| | ||||| ||||||||||||||||| || || ||||| ||||| || || || || ||||||||||| |||||||| || |||||||||||| ||| || | || | | | ||| | | | | | ||||| || | | | | | | | ||| | | |
TGCATTGAAATTGGAGTCCGTTCCTGACTGGATTGCGATAGTAGGAAGTGGTTATATCGGTCTTGAGTTCAGTGATGTTTACACGGCCCTTGGAAGTGAGgta-----aca-ttttgattttgtgctaatgatttgcactggtgtgatagtgtgttgttttttgcgttc-tctttagttttctgttttctctcaatagtaacaaaag

upper sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv05s0077g01210.t01 (Vitis vinifera), 5'ss of exon 5
TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaacagttcctaagatgcatcattttctaacacatgcatagaaacagacatgttttgggtgcatacatgtt-ctgcaagtgtcttttcttggctt-
||| || ||||| ||||| |||||||| ||||| || || || ||||| ||||| ||||| || |||||||||||||| || || || || |||||||||||| || || ||| | || ||| ||| || | ||| ||| | || ||| | | |
TGCGCTCAAACTGGAGTCTGTTCCTGATTGGATAGCCATTGTAGGAAGTGGTTATATTGGTCTTGAATTCAGTGATGTGTATACAGCACTTGGAAGTGAGgta-gcatcttctttatagtcattgcgattacagtttaaatttatataaat-gagaaatttcaatcaatagtgagttacagcttagatctggtgctaaaatc

upper sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S112_186V6.1 (Physcomitrella patens), 5'ss of exon 5
TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaacagttcctaagatgcatcattttctaacacatgcatagaaacagacatgttttgggtgcatacatgt-tctgcaagtgtcttttcttggctt---------------------
||| || || || |||| | || ||||||||||| || || ||||| ||||||||||| || || ||||| ||||| || || || || |||||||||||| | | ||||| |||| ||| ||| ||| || || ||| | | | | | | |||| | | | || |||
TGCGCTGAAGCTGGAGTGGATCCCAGACTGGATTGCCATTGTTGGAAGTGGTTACATTGGTCTTGAGTTCAGCGATGTCTATACTGCCCTTGGAAGTGAGgtaaa-----atttccttg--cgcattatt----gacaataaaataaaagtggatgtgtggagtgcgtgtgtaattatctgacaataattggagctgacttcccttttctgtgggcttgcag

upper sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S352_68V6.1 (Physcomitrella patens), 5'ss of exon 5
TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaacagtt--cctaagat------gcatcatt-ttctaacacatgcatagaaacagac--atgttttgggtgcatacatgttct-gcaagt-gtcttttcttggctt-------
|| | || | |||| |||| ||||||||||| ||||| || |||||||||||||| || || ||||||||||||||||| ||||| ||||| ||||| | | | || | | | | |||| || || || || | | | | || | || | | ||| || ||||| | | | | || |
CGCTTTGAAGTTAGAGTGGATTCCAGACTGGATTGCGATCGTTGGCAGCGGTTACATTGGTCTAGAGTTCAGTGATGTATACACAGCTCTCGGAAGCGAGgtcagtaaccgtttgtctcacggtctaggagcatttttattttattctattttttcactttgtcgtatatcttcatcacttgtatggactcacaagttgacctcttttcgtgcccggcag

upper sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S35_94V6.1 (Physcomitrella patens), 5'ss of exon 5
TGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaacagttcctaagatgcatcattttctaacacatgcatagaaacagacatgttttgggtgcataca--tgt--tctgcaagtgtcttttcttggctt---------------
||| | || || |||| |||| |||||||| |||| || ||||| ||||||||||| || || ||||||||||| ||||| || || ||||| |||||||| | || | || || ||||| || | | || || | | ||| | | | | | | ||| ||| | | | || | |||
TGCGTTGAAGCTGGAGTGGATTCCCGACTGGATCACTATTGTCGGAAGTGGTTACATTGGTCTTGAGTTCAGTGATGTTTACACTGCCCTTGGAAGCGAGgtaca-gttttattgaaaggacacaatatttttaaaaata-aaatggatatat-tgggttctagttttaaaaagttgtcatctagtggagcttattttcctcttgctgtgggttggcag

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|58684178|gb|CK072865.1|CK072865
EST:     GTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAG                         GTTACTTTTGTTGAAGCACTTGATCAGTTGATGCCT
genomic: GTTACATTGGACTGGAATTCAGTGATGTATACACGGCTCTGGGAAGTGAGgtacatgaac ... acttggacagGTTACTTTTGTTGAAGCACTTGATCAGTTGATGCCT