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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccatccaaaattggagataacacacacatactgcatacatataagaaagttacaaattgacctcctttgttacagGATGGTGACATTATCAACATTGATGTTACTGTTTATCTCAAT

Basic information

species Oryza sativa
transcript LOC_Os02g52420.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g52420.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA01G39200.1 (Glycine max), 3'ss of exon 4
gtaagccatccaaaattggagataacacacacatactgcatacatataagaaagttacaaattgacctcctttgttacagGATGGTGACATTATCAACATTGATGTTACTGTTTATCTCAAT
    |   | | | |   |   |     |   | ||  | |   |  || ||| ||           || ||  || ||||||||||| || |||||||||||||||||||||||||| |||
----gttcttctatacaagttcttttgaagttaaacatcctgtgtgaaaaaaaatttgttgacacattctttatttgcagGATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT
















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|29657569|gb|CB653844.1|CB653844
EST:     CAGTGAATGAGTGCATCTGTCATGGTATACCTGATTCTCGTCCTCTTGAA                         GATGGTGACATTATCCACATTGATGTTACTGTTTATCTCAAT
genomic: CAGTGAATGAGTGCATCTGTCATGGTATACCTGATTCTCGTCCTCTTGAAgtaagccatc ... tttgttacagGATGGTGACATTATCAACATTGATGTTACTGTTTATCTCAAT
EST: gi|86494445|gb|CI137078.1|CI137078
EST:     AATGAGTGCATCTGTCATGGTATACCTGATTCTCGTCCTCTTGAA                         GATGGTGACATTATCAACATTGATGTTACTGTTTATCTCAAT
genomic: AATGAGTGCATCTGTCATGGTATACCTGATTCTCGTCCTCTTGAAgtaagccatc ... tttgttacagGATGGTGACATTATCAACATTGATGTTACTGTTTATCTCAAT
EST: gi|29657570|gb|CB653845.1|CB653845
EST:     CAGTGAATGAGTGCATCTGTCATGGTATACCTGATTCTCGTCCTCTTGAA                         GATGGTGACATTATCAACATTGATGTTACTGTTTATCTCAAT
genomic: CAGTGAATGAGTGCATCTGTCATGGTATACCTGATTCTCGTCCTCTTGAAgtaagccatc ... tttgttacagGATGGTGACATTATCAACATTGATGTTACTGTTTATCTCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacacacatactgcatacatataagaaagttacaaattgacctcctttgttacagGATGGTGACATTATCAACATTGATGTTACTGTTTATCTCAAT
                                  aattgac  putative branch site (score: 3)
                                        cctcctttgtt  CT-rich tract
              atacatataagaaa  TA-rich tract