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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaattgaacacacatatacatgcagagtcaacttagtttgatgtttatcataatctcctcttggtcttatcttattctactggtttttaattagtagccttgtctgtctctccccttaaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG

Basic information

species Oryza sativa
transcript LOC_Os12g03860.5
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g03860.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM5G877788_T03 (Zea mays), 3'ss of exon 1
gtatgaattgaacacacatatacatgcagagtcaacttagtt-tgatgtttatcataatctcctcttggtcttatcttattctactggtttttaattagtagccttgtctgtctctccccttaaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
                              ||   || |||| ||| | || |  | |     |  || ||   |  |  || ||   |  |  | |  |    ||||   | |  |        ||| |||||||||||||| | ||| ||||||||||||| |||||||||
------------------------------gtt--ctgagttctgacgattcttctgaaacgtttgtgctcacctgctgctcgacgactcatccactgctcttgttgttgttgttgctgtccttttttgcagCTCTGCCAATCACGTCCCTGTTCCCCTTCCTCTACTTCATG
















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|86904944|gb|CI310737.1|CI310737
EST:     CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCT                         CTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATGA
genomic: CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCTgtatgaattg ... aaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATGA
EST: gi|87008889|gb|CI304832.1|CI304832
EST:     CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCT                         CTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
genomic: CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCTgtatgaattg ... aaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
EST: gi|33795182|gb|CF323464.1|CF323464
EST:     CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCT                         CTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
genomic: CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCTgtatgaattg ... aaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
EST: gi|88571513|gb|CI662886.1|CI662886
EST:     CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCT                         CTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
genomic: CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCTgtatgaattg ... aaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
EST: gi|88372054|gb|CI641689.1|CI641689
EST:     CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCT                         CTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
genomic: CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCTgtatgaattg ... aaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
EST: gi|88694564|gb|CI738602.1|CI738602
EST:     CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCT                         CTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
genomic: CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCTgtatgaattg ... aaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
EST: gi|33692622|gb|CF320861.1|CF320861
EST:     CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCT                         CTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
genomic: CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCTgtatgaattg ... aaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
EST: gi|33677540|gb|CF305779.1|CF305779
EST:     CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCT                         CTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
genomic: CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCTgtatgaattg ... aaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
EST: gi|88342532|gb|CI637108.1|CI637108
EST:     CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCT                         CTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
genomic: CATTCCCTACAGGGAGTTCCTCTTCGTTGCCATCACCACCCTCGCCTCCTgtatgaattg ... aaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattctactggtttttaattagtagccttgtctgtctctccccttaaattttcagCTCTGCCAATCTCTTCCTTGTTCCCCTTCCTGTACTTCATG
            ttttaat  putative branch site (score: 3)
                         ccttgtctgtctctcc  putative PPT
           tttttaattagta  TA-rich tract