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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatgaaagtattttgaacatttaatttcttctaacagattataaaatcctgaccatgattcctctcctttaattagGACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAATGTTGATACAAG

Basic information

species Oryza sativa
transcript LOC_Os07g22640.4
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22640.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G092129_T02 (Zea mays), 3'ss of exon 7
-----gtgagatgaaagtattttgaacatttaatttcttctaacagattataaa--atcctgaccatgattcctct-cctttaattagGACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAATGTTGATACAAG
     ||||   || |||||||||||||||  |   || | | || | ||||||  |   | |||||| ||| | | ||||| |||||||||||||| |||||||||||||||| ||||||  |||||||||||||| |||||||  ||||||||||||||||||||| ||
gtatggtgactagacagtattttgaacattctagccctaccagca-actataaatcaatgtaaccatggttcttttgcctttgattagGACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCATGTTGTTAAACTTGGTGTCAATGTTGATACGAG

upper sequence: LOC_Os07g22640.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA03G02370.1 (Glycine max), 3'ss of exon 7
gtgagatgaaagtattttgaac-atttaatttcttctaacagattataaaat------cctgaccatgattcctctcctttaatt---agGACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAAT---GTTGATACAAG
||||| |    || || || ||    |  || | |   ||||||| | || |       || ||  | ||   |  ||   | ||   |||| ||||| || ||||||||| ||||||||||| | ||||| || ||| |||| ||||||||||||| || |   |||||||| ||
gtgagttatttgttttatgtactgcatctttcccttggacagattttgaagtagcatttctaactctaatatttacccaccatttcacagGATACTGTGAACTCAATTGTTACTGACATGCTCCAATGGCCTCATAGGATTGTGGTTCCACTTGGTGGCATTCCTGTTGATACCAG

upper sequence: LOC_Os07g22640.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 8
gtgagatgaaagtattttgaacatttaatttcttctaacagattataaaat------cctgaccatgattcctctcctttaatt---agGACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAAT---GTTGATACAAG
||||| |    || || || ||      ||||   | |||| || | || |        | ||  | ||   |  ||   | ||   |||| ||||| || ||||||||| ||||||||||| | ||||| || ||| |||| ||||||||||||| || |   |||||||| ||
gtgagttacttgttttatgtactgcatctttcacttgacagtttttgaagtagcatttgtaacactaatatttacccaccattttacagGATACTGTGAACTCAATTGTTACTGACATGCTCCAATGGCCTCATAGGATTGTGGTTCCACTTGGTGGCATTCCTGTTGATACCAG

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|29624991|gb|CB630002.1|CB630002
EST:     CTATTGGAGGAAGTCTGACCGCTGTTCCAGGACTCTCCGACATGATTGAT                         GACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTT
genomic: CTATTGGAGGAAGTCTGACCGCTGTTCCAGGACTCTCCGACATGATTGATgtgagatgaa ... ctttaattagGACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTT
EST: gi|44674448|gb|CR287882.1|CR287882
EST:     CTATTGGAGGAAGTCTGACCGCTGTTCCAGGACTCTCCGACATGATTGAT                         GACCCTGCTCA-TTCAACTGTTTCTGACATGCTCCAGTGGCCA-ACAGGCT
genomic: CTATTGGAGGAAGTCTGACCGCTGTTCCAGGACTCTCCGACATGATTGATgtgagatgaa ... ctttaattagGACACTG-TCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCT
EST: gi|29624993|gb|CB630004.1|CB630004
EST:     CTATTGGAGGAAGTCTGACCGCTGTTCCAGGACTCTCCGACATGATTGAT                         GACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTT
genomic: CTATTGGAGGAAGTCTGACCGCTGTTCCAGGACTCTCCGACATGATTGATgtgagatgaa ... ctttaattagGACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttcttctaacagattataaaatcctgaccatgattcctctcctttaattagGACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAATGTTGATACAAG
                                     ttcctctcctttaatt  CT-rich tract
          taacagattataaaat  TA-rich tract