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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtaaatacaactagattttgtattttttgcttcttgatattcatgcgtccttatcagattgggtttaatggttgcaataatgacttgaatcctgacggtgcctgcagGTTTACCTGACACTATGCGTCGCCCTGGCTGCGTCGGCGGTGGGCGCATACCTGCACGTCGCCTTGAACATCGGCGGGATGTTGACTATGCTCGGGTGCG

Basic information

species Oryza sativa
transcript LOC_Os02g03280.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g03280.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G027726_T01 (Zea mays), 3'ss of exon 1
gttgtaaatacaactagattttgtattttttgcttcttgatattcatgcgtccttatcagattgggtttaatggttgcaataatgacttgaatcctgacggtgcctgcagGTTTACCTGACACTATGCGTCGCCCTGGCTGCGTCGGCGGTGGGCGCATACCTGCACGTCGCCTTGAACATCGGCGGGATGTTGACTATGCTCGGGTGCG
| | ||       | |||      | |||    |   | ||||||       || ||| ||    |  |  ||||| | ||   |  | |  |  |     | ||||||||||||||| || |||||||| || |||||  |||||||||||||||| ||||||||||||| || |||||||||||||||| |||| |||||||| ||||
gatttagtctgctcgagagacgacaatttg-attcaattatattc---taatctgatctgaccttggctgttggtttcgat--cggttcgctttttt----ttcctgcagGTTTACCTCACCCTATGCGTGGCGCTGGCCTCGTCGGCGGTGGGCGCGTACCTGCACGTCGTCTGGAACATCGGCGGGATGCTGACCATGCTCGGCTGCG

upper sequence: LOC_Os02g03280.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G465430_T01 (Zea mays), 3'ss of exon 1
gttgtaaatacaactagattttgtattttttgcttcttgatattcatgcgtccttatcagattgggtttaatggttgcaataatgacttgaatcctgacggtgcctgcagGTTTACCTGACACTATGCGTCGCCCTGGCTGCGTCGGCGGTGGGCGCATACCTGCACGTCGCCTTGAACATCGGCGGGATGTTGACTATGCTCGGGTGCG
         ||    |||   || ||  |  | ||    | |   |    |  | |   |||| |  |  |    ||      ||  | |   | ||    ||||||||||| ||||| || || ||||  || |||||  |||||||||||||||| ||||||||||| | || |||||||||||                        
-----cgtcactttaagaacatgcatgatccggttag-aacagcaagatatgataaatcgatttgaatccaaatctgaccctctggttcgg--cttggt--tgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTACCTGCACGTGGTCTGGAACATCGGCG------------------------

upper sequence: LOC_Os02g03280.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G029087_T02 (Zea mays), 3'ss of exon 1
gttgtaaatacaactagattttgtattttttgcttcttgatattcatgcgtccttatcagattgggtttaatggttgcaataatgacttgaatcctgacggtgcctgcagGTTTACCTGACACTATGCGTCGCCCTGGCTGCGTCGGCGGTGGGCGCATACCTGCACGTCGCCTTGAACATCGGCGGGATGTTGACTATGCTCGGGTGCG
         ||    |||   || ||  |  | ||    | |   |    |  | |   |||| |  |  |    ||      ||  | |   | ||    ||||||||||| ||||| || || ||||  || |||||  |||||||||||||||| ||||||||||| | || |||||||||||| | | |||| |||||||| ||||
-----cgtcactttaagaacatgcatgatccggttag-aacagcaagatatgataaatcgatttgaatccaaatctgaccctctggttcgg--cttggt--tgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTACCTGCACGTGGTCTGGAACATCGGCGGTACGCTGACAATGCTCGGTTGCG

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|4878227|gb|AU062526.1|AU062526
EST:     AGTCTGAATGTTATGCCCCATAGCCTGGGATGCTTTTCATGCCTTCTTAG                         GTTTACCTGACACTATGCGTCGCCCTGGCTGCGTCGGCGGTGGGCGCATAC
genomic: AGTCTGAATGTTATGCCCCATAGCCTGG-ATGCTTTTCATGCCTTCTTAGgttgtaaata ... gtgcctgcagGTTTACCTGACACTATGCGTCGCCCTGGCTGCGTCGGCGGTGGGCGCATAC
EST: gi|5701681|gb|AU062555.2|AU062555
EST:     AAGTCTGAATGTTATGCCCCATAGCCTGGATGCTTTTCATGCCTTCTTAG                         GTTTACCTGACACTATGCGTCGCCCTGGCTGCGTCGGCGGTGGGCGCATAC
genomic: AAGTCTGAATGTTATGCCCCATAGCCTGGATGCTTTTCATGCCTTCTTAGgttgtaaata ... gtgcctgcagGTTTACCTGACACTATGCGTCGCCCTGGCTGCGTCGGCGGTGGGCGCATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcagattgggtttaatggttgcaataatgacttgaatcctgacggtgcctgcagGTTTACCTGACACTATGCGTCGCCCTGGCTGCGTCGGCGGTGGGCGCATACCTGCACGTCGCCTTGAACATCGGCGGGATGTTGACTATGCTCGGGTGCG
                                     tcctgac  putative branch site (score: 2)
                       aataatga  TA-rich tract