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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCCAGATACTAATTATTTATTTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagttaacctacttattttctttgatgagtatttatatacagttttacagaagctgtcaagtttcacataccagatttatttgttcttattggcca...

Basic information

species Oryza sativa
transcript LOC_Os03g07150.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g07150.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G112793_T01 (Zea mays), 5'ss of exon 4
TGCCCAGATACTAATTATTTATTTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagag-ttaacc--tacttattttctttgatgagta---tttatatacagttttacagaagctgtcaagtttcacataccagatttatttgttcttattggcca
|| ||||| || ||||| |||||||||||||||||||| ||||||||||| || |||||||||||||| |||||||||  ||||||  | |||| |||||||    |||    ||| | |   | ||| | |||  ||||  |||||||||     |||    ||     |       
TGTCCAGACACCAATTACTTATTTATGGGGGATTATGTAGATCGTGGCTACTATTCTGTTGAGACTGTCACTgtaagaaattaaccgctgcttactttctttatcaagttagttttctttgttgctttgcggaa-ttgtcttgtttcacatgt--aattgtgctggaaaaaggaa---

upper sequence: LOC_Os03g07150.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G420926_T03 (Zea mays), 5'ss of exon 3
----------------------------TGCCCAGATACTAATTATTTATTTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagttaacctacttattttctttgatgagta---tttatatacagttttacagaagctgtcaagtttcacata--------ccagatttatttgttcttattggcca----------------------------------------------------------------------------------------
                            || ||||| || ||||| ||||||||||| |||||||| ||||||||||| || |||||||||||||| |||||||||  | | | |||  |||||||||   |||    ||| | |   ||||| |||||  |||   ||||||||||        |  ||   |     ||| |||   ||                                                                                        
TGCCAGTTTTATTCTCTTCTGTTTCCAGTGTCCAGACACCAATTACTTATTTATGGGAGATTATGTAGATCGTGGCTACTATTCTGTTGAGACTGTCACTgtaagaaattaaccactatttttctttgccaagttagttttctttcttgttttgcagaa-ttgttttgtttcacatataatggtgctggaaaaaggaaatctgattcatcaagttatgctttaacatatttcttatggtcttaatctcagttcatattatgagtaagcattatatatttatattatgttcttactccag

upper sequence: LOC_Os03g07150.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G420926_T01 (Zea mays), 5'ss of exon 4
TGCCCAGATACTAATTATTTATTTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagttaacctacttattttctttgatgagta---tttatatacagttttacagaagctgtcaagtttcacata--------ccagatttatttgttcttattggcca----------------------------------------------------------------------------------------
|| ||||| || ||||| ||||||||||| |||||||| ||||||||||| || |||||||||||||| |||||||||  | | | |||  |||||||||   |||    ||| | |   ||||| |||||  |||   ||||||||||        |  ||   |     ||| |||   ||                                                                                        
TGTCCAGACACCAATTACTTATTTATGGGAGATTATGTAGATCGTGGCTACTATTCTGTTGAGACTGTCACTgtaagaaattaaccactatttttctttgccaagttagttttctttcttgttttgcagaa-ttgttttgtttcacatataatggtgctggaaaaaggaaatctgattcatcaagttatgctttaacatatttcttatggtcttaatctcagttcatattatgagtaagcattatatatttatattatgttcttactccag

upper sequence: LOC_Os03g07150.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S88_180V6.1 (Physcomitrella patens), 5'ss of exon 4
TGCCCAGATACTAATTATTTATTTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagttaacct-----------acttattttctttgatgagtatttatatacagttttacagaagctgtcaagtttcacataccagatttatttgttcttattggcca----------------------------------------------------------------------------
|| |||||||| ||||| || || |||||||||||||||||||| ||||||||||| ||||| || |  || |||||  || | ||           ||   ||| | ||    ||| ||| ||   | | || ||     | ||||        |||   | |  |  |||    |||  |                                                                             
TGTCCAGATACCAATTACTTGTTCATGGGGGATTATGTGGATCGCGGCTATTACTCAGTTGAAACCGCAACAgtaagtttttatctcatacagtttgaccattttccctttgatagtctttttaggaattcttccatctattatcaacgaatgt-tactccactgctgcgtttcagttgtacgctgctagagtcttcattttgtggatataacttccgacgatagcagcagatttttaaccgttgtttttaaccgacag

upper sequence: LOC_Os03g07150.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S81_198V6.3 (Physcomitrella patens), 5'ss of exon 5
TGCCCAGATACTAATTATTTATTTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagttaacctacttattt--------tctttgatgagtatttatatacagttttacagaagctgtcaagtttcacat-acc--agatttatttgttcttattggcca----------------------------------------------------------------------------------
|| ||||| || ||||| ||||||||||| ||||||||||||||||| ||||| || ||||| |||| ||| || ||  ||  | ||   | ||        | | ||||     | ||| |  |  ||||       |||   | |     | | |  || ||| ||  ||  |  ||  |                                                                                   
TGTCCAGACACCAATTACTTATTTATGGGAGATTATGTGGATCGTGGTTATTATTCAGTTGAAACTGCTACAgtgagtattctcttatccaattggaccaattttatgatttcactctattttgaaatttattctccttgtgttggtatgtgttagcgaaggtttcttgattgctgctgtacttccataagctgcaagataaattggttttgcgcttgtggctctacgtaatagtaacgtgttctgacatttatttttctggcag

upper sequence: LOC_Os03g07150.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ32273 (Selaginella moellendorffii), 5'ss of exon 4
TGCCCAGATACTAATTATTTATTTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagttaacctacttattttctttgatgagtattta-tatacagttttacagaagctgtcaagtttcacataccagatttatttgttcttattggcca
|| |||||||| || || || |||||||| ||||||||||||||||| || ||||| || |||||||  ||||| ||   |   ||  | |||| | || | |   | |   |     ||| | |  | || |                                        
TGTCCAGATACAAACTACTTGTTTATGGGCGATTATGTGGATCGTGGGTACTACTCCGTCGAGACTGCAACTgtgagttctcctcttgtcatttacattcaagctgactcggttcttcgttctgct-atgcag----------------------------------------

upper sequence: LOC_Os03g07150.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ16562 (Selaginella moellendorffii), 5'ss of exon 4
TGCCCAGATACTAATTATTTATTTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagttaacctacttattttctttgatgagtattta-tatacagttttacagaagctgtcaagtttcacataccagatttatttgttcttattggcca
|| |||||||| || || || |||||||| ||||||||||||||||| || ||||| || |||||||  ||||| ||   |   ||  | |||| | |  | |   | |   |     ||| | |  | || |                                        
TGTCCAGATACAAACTACTTGTTTATGGGCGATTATGTGGATCGTGGGTACTACTCCGTCGAGACTGCAACTgtgagttctcctcttgtcatttacatgcaagctgactcggttcttcgttctgct-atgcag----------------------------------------

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|29638619|gb|CB643628.1|CB643628
EST:     TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACT                         CTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
genomic: TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagtta ... ccttatccagCTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
EST: gi|218480610|gb|FG959508.1|FG959508
EST:     TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACT                         CTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
genomic: TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagtta ... ccttatccagCTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
EST: gi|218485818|gb|FG963200.1|FG963200
EST:     TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACT                         CTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
genomic: TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagtta ... ccttatccagCTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
EST: gi|29617800|gb|CB622812.1|CB622812
EST:     TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACT                         CTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACGATCCTTCGC
genomic: TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagtta ... ccttatccagCTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
EST: gi|4880937|gb|AU065236.1|AU065236
EST:     TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACT                         CTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
genomic: TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagtta ... ccttatccagCTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
EST: gi|29682371|gb|CB678646.1|CB678646
EST:     TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACT                         CTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
genomic: TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagtta ... ccttatccagCTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
EST: gi|29615298|gb|CB620310.1|CB620310
EST:     TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACT                         CTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
genomic: TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagtta ... ccttatccagCTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
EST: gi|58680593|gb|CK069280.1|CK069280
EST:     TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACT                         CTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
genomic: TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagtta ... ccttatccagCTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
EST: gi|58679325|gb|CK068012.1|CK068012
EST:     TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACT                         CTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
genomic: TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagtta ... ccttatccagCTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
EST: gi|58665829|gb|CK054515.1|CK054515
EST:     TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACT                         CTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC
genomic: TTATGGGGGATTATGTGGATCGTGGCTATTACTCTGTTGAGACTGTTACTgtaagagtta ... ccttatccagCTTTTGGTAGCGCTGAAGGTGCGTCACCCACATCGGATTACAATCCTTCGC