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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatatataattaaacaaattgaactcatatctataaataatgcatatatgtatatttgaatatttgatggacaaattatatgaatggaccatatatatgacatatttagGTTTGGAGGCAACGAAGGAGATGACGCTGGTAGAGAAGGTGAAGCATGGAGAGTACTACATCGAAGCGGCGTGGCCATTGGGCACCGCCATTGAGGCTGT

Basic information

species Oryza sativa
transcript LOC_Os11g03290.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g03290.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G006762_T02 (Zea mays), 3'ss of exon 2
gtatgtatatataattaaacaaattgaactcatatctataaataatgcatatatg-tatatttgaatatttgatggacaaattatatgaatggaccatat-atatgacatatt-tagGTTTGGAGGCAACGAAGGAGATGACGCTGGTAGAGAAGGTGAAGCATGGAGAGTACTACATCGAAGCGGCGTGGCCATTGGGCACCGCCATTGAGGCTGT
                             |  | |  || |  |      | ||| ||  || | |||| |      ||| | |||   |   |  | ||    ||  ||| |  |||| |||||   || |||||||| ||  |||| || ||||||||||| |||||||||||| ||||||| || |||||  | ||| | || |||||||||||
---------------------------gttagtgtaaatgatcaccaatgaaatggtacgttgggatatgtagaatgcaa-tgatactgactaatgaaattgcgtgcaataatgcagGTGTGGAGAGGACCAAGGAGATCACAGTGGTGGACAAGGTGAAGCACGGAGAGTACTACGTCGAAGCTGCATGGCCTCTAGGCTCTGCTATTGAGGCTGT

upper sequence: LOC_Os11g03290.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G085711_T02 (Zea mays), 3'ss of exon 8
---gtatgtatatataattaaacaaattgaactcatatctataaataatgcata-tatgtatatttgaatatttg-atggacaaattatatgaatggaccatatatatgacatatttagGTTTGGAGGCAACGAAGGAGATGACGCTGGTAGAGAAGGTGAAGCATGGAGAGTACTACATCGAAGCGGCGTGGCCATTGGGCACCGCCATTGAGGCTGT
      || ||   |  || ||   || ||||   | |   |    |   | |   |   | | || | | |  | || |    ||| ||||  || |  | ||  ||         |||| || || ||| |||  |||| ||  | |||   |||||||||||||| || ||||||||||||||  | ||||| ||||| || || |||||||| ||
gtaagttgcatcggttcttgaatcgatggaacctttgttgctttgaagctcttggcaatcagacttcactctcggcatagttcgatt-tatgtctg-attagatgcattgt---cgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCGAATACTACATCGAAGCCACATGGCCTTTGGGTACGGCTATTGAGGCCGT

upper sequence: LOC_Os11g03290.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G431714_T01 (Zea mays), 3'ss of exon 7
----gtatgtatatataattaaacaaattgaactcatatctataaataatgcatatat--gtatatttgaatatttgatggacaaattatatgaatggaccatatatatgacat-atttagGTTTGGAGGCAACGAAGGAGATGACGCTGGTAGAGAAGGTGAAGCATGGAGAGTACTACATCGAAGCGGCGTGGCCATTGGGCACCGCCATTGAGGCTGT
    |||  |   ||   |  |      || |    | |   ||||||||  |  |    |  | | ||||| |||  | |     || | |   ||    || | | |   || | |||||  |  || | |  ||| || | ||||||||    |||||||||||||||||||||||| || | || |||||||| ||||||||||| || |||||  |
gtcagtagctggctaagctagagatcgatggagcagtttgattaaataatttagttgctagcttttctgaatctttttttgttg--tttttttgttgtgtgatttgtgtcgtattaattagGACTCAAGTCGATCAAGAAGGTCACGCTGGTCTCCAAGGTGAAGCATGGAGAGTACTACGTCCAGGCTGCGTGGCCTTTGGGCACCGCTATCGAGGCATT

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|88980762|gb|CI022457.1|CI022457
EST:     TCTATGCATGGACCTCGTTTACCAATACACCTTGCTTGTCGATGGCTTTG                         GTTTGGAGGCAACGAAGGAGATGACGCTGGTAGAGAAGGTGAAGCATGGAG
genomic: TCTATGCATGGACCTCGTTTACCAATACACCTTGCTTGTCGATGGCTTTGgtatgtatat ... acatatttagGTTTGGAGGCAACGAAGGAGATGACGCTGGTAGAGAAGGTGAAGCATGGAG
EST: gi|87012972|gb|CI297199.1|CI297199
EST:     TCTATGCATGGACCTCGTTTACCAATACACCTTGCTTGTCGATGGCTTTG                         GTTTGGAGGCAACGAAGGAGATGACGCTGGTAGAGAAGGTGAAGCATGGAG
genomic: TCTATGCATGGACCTCGTTTACCAATACACCTTGCTTGTCGATGGCTTTGgtatgtatat ... acatatttagGTTTGGAGGCAACGAAGGAGATGACGCTGGTAGAGAAGGTGAAGCATGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgaatatttgatggacaaattatatgaatggaccatatatatgacatatttagGTTTGGAGGCAACGAAGGAGATGACGCTGGTAGAGAAGGTGAAGCATGGAGAGTACTACATCGAAGCGGCGTGGCCATTGGGCACCGCCATTGAGGCTGT
       atttgat  putative branch site (score: 5)
                                    atatatatgacatatt  TA-rich tract