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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgccctgctgtaggtacaagttctgaaaccgtcagcaatcaatacaccaatcttaattaatttatgtgttgacatgcattgtatttcagATTGGTGCAATATCCTGGTGAGTTTGTGGTGACATTCCCAAGGGCTTACCATGTCGGGTTTAGCCATG

Basic information

species Oryza sativa
transcript LOC_Os03g05680.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g05680.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AC149475.2_FGT005 (Zea mays), 3'ss of exon 1
-----gtgtgccc-tgctgtaggtacaagttctgaaaccgtcagcaatca---atacaccaatcttaattaatttatgtgttgacatg---cattgtatttcagATTG---GTGCAATATCCTGGTGAGTTTGTGGTGACATTC--CCAAGGGCTTACCATGTCGGGTTTAGCCATG------------------------------------
      |       |  |||   | || |        | | |||   |     | |   |||  || ||   |  |  ||||    |    | | || |  |    ||   || |||  ||       |   | | |  ||||    |||  | | |  || |    || || |||                                     
gttccataaatttgtattgttaatccacgcagcatcgctggcagtgcttggggagaagacaacattgatgtctccagatgttcttgtagcccgtggtgtgccctgctgtagGTACAAGCTCTGAAATGGCCAGCGTTTCCATTGGGTCAAATGTTCATGATATTA--TTCAGACATCAGATTCTTATGAATTCTTTGCTGATATGTACTGTTT

upper sequence: LOC_Os03g05680.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AC149475.2_FGT005 (Zea mays), 3'ss of exon 2
gtgtgccctgctgtaggtacaagttctgaaaccgtcagcaatcaatacaccaatcttaattaatttatgtgttgacatgc-attgtatttcagATTGGT-----GCAATATCCTGGTGAGTTTGTGGTGACATTCCCAAGGGCTTACCATGTCGGGTTTAGCCATG-------------------
||  |  | |      | | |  || ||    | |   |||     | ||||   |   || | | |||  | |  |||| |||| | |   |||   |     |||      |  ||| ||  | ||||  | |  |   | | || ||||    |  |||  ||                   
gttagtacagtatcctggagagtttgtggtgacattcccaag-ggcataccacattgggtttagtcatggttagttatgccattgaactaatgatgcctttttggcacagCTTTATTGAATTGATTGTGATGTGCT-ATTTGTTAACTATGTTTATTCCAGCTTTGCTAGATTTTCACCTTCATG
















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|88225196|gb|CI225112.1|CI225112
EST:     GCTTGGTGAGAAAACAACACTAATGTCCCCAGAGGTCCTTATAGACAATG                         ATTGGTGCAATATCCTGGTGAGTTTGTGGTGACATTCCCAAGGGCTTACCA
genomic: GCTTGGTGAGAAAACAACACTAATGTCCCCAGAGGTCCTTATAGACAATGgtgtgccctg ... tgtatttcagATTGGTGCAATATCCTGGTGAGTTTGTGGTGACATTCCCAAGGGCTTACCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaatcaatacaccaatcttaattaatttatgtgttgacatgcattgtatttcagATTGGTGCAATATCCTGGTGAGTTTGTGGTGACATTCCCAAGGGCTTACCATGTCGGGTTTAGCCATG
                                tgttgac  putative branch site (score: 3)
              aatcttaattaattta  TA-rich tract