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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttatttcctctactatcgtatcattatcgaacctgcctttcctttatcattcttctttttatagtggcagaacactgaatactgccttttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCGTGGTTCCAAGACTCTTGACCTTGTCAAGAGTGCTGGTTTCCCCTCTGGC

Basic information

species Oryza sativa
transcript LOC_Os12g42884.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g42884.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G149751_T02 (Zea mays), 3'ss of exon 5
gtatgtttatttcctctactatcgtatcattatcgaacctgcctttcctttatcattcttctttttatagtggcagaacactgaatactgccttttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCGTGGTTCCAAGACTCTTGACCTTGTCAAGAGTGCTGGTTTCCCCTCTGGC
||||||| ||||      ||| |  | | || ||    | ||| || ||   || |    | |||| |  || ||  | |||   |  |  ||||| | ||||||||||| |||||||||| ||| |||||||||||||||||||| ||| |||||||  || | |||||||  ||||||| |||||||||||||||  |||| 
gtatgtt-atttatgtcgctagctcacccttttc---tcagccattgctcc-tcctagacccttttgtgatgacatcatacttgctgtt--cttttgaatgcagGACCCTAACATCCCTGAGCAGTGTGACTGCTTATGGTTTTGATCTTGTCCGTGGAACCCAAACTCTTGGGCTTGTCACGAGTGCTGGTTTCCCTGCTGGA
















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|300215517|gb|HO088143.1|HO088143
EST:     AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
genomic: AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
EST: gi|4880963|gb|AU065262.1|AU065262
EST:     AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCANANACCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
genomic: AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
EST: gi|29620902|gb|CB625913.1|CB625913
EST:     AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
genomic: AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
EST: gi|25797709|gb|CA753670.1|CA753670
EST:     AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
genomic: AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
EST: gi|58668944|gb|CK057630.1|CK057630
EST:     AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGAACCTTATCC
genomic: AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGA-CCTTATCC
EST: gi|2443164|gb|C74935.1|C74935
EST:     AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
genomic: AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
EST: gi|58664132|gb|CK052818.1|CK052818
EST:     AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
genomic: AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
EST: gi|29615679|gb|CB620691.1|CB620691
EST:     AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
genomic: AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
EST: gi|29635138|gb|CB640147.1|CB640147
EST:     TGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
genomic: TGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
EST: gi|117239956|gb|CT849487.1|CT849487
EST:     AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCC
genomic: AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCC-
EST: gi|3766872|gb|AU030982.1|AU030982
EST:     AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAA                         GACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG
genomic: AATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCATACAAgtatgtttat ... ttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcattcttctttttatagtggcagaacactgaatactgccttttcactgcagGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCGTGGTTCCAAGACTCTTGACCTTGTCAAGAGTGCTGGTTTCCCCTCTGGC
                                      ctgccttttc  CT-rich tract
     attcttctttttata  TA-rich tract