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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggctcaacttaaacctgattaagaatctagagccgtttttctgttttctgatatatatcagaagtatttatatgcataatcttttttgatatttcacgtgcagAATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAGAAAGGGGGAACGCCTGATTCCCCCTGTTACATTTGATCTGTTCATGAGA

Basic information

species Oryza sativa
transcript LOC_Os01g03760.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g03760.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G121683_T01 (Zea mays), 3'ss of exon 5
---------------------------gtatggctcaacttaaacctgattaagaatctagagccgtttttctgttttc----tgatatatatcagaagtatttatatgcataatcttttttgatatttcacgtgcagAATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAGAAAGGGGGAACGCCTGATTCCCCCTGTTACATTTGATCTGTTCATGAGA
                           |||         |    |    ||    ||    |  |    ||||| ||||    | | | |  |   || ||||| ||    |||    |  |  | |||   ||| ||||||||||||| | ||||||||||    || ||| |||||||||||||||||||||| |||||| |  ||||||||||| |||||||  |||||||||||
gtattacttagtataaagctctaattagtaacatcatggtgttgctgtgttgtatattataaagcaccattctgatttcgttttaacacactttgaaaatatttgtagttctaacacctcgtattgttt-gtgtgtagAATTTTGTCTGTCACCAAAGCTCGTTCTATATTATTGAATGGTGCTGTTAGAAAGGGAGAACGCTTAGTTCCCCCTGTTTCATTTGACTTGTTCATGAGA

upper sequence: LOC_Os01g03760.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G155709_T02 (Zea mays), 3'ss of exon 5
---------------------------gta-tggctcaacttaaacctgattaagaatctagagccgtttttctgttttctgatatatatcagaagtatttatatgcataatcttttttgatatttcacgtgcagAATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAGAAAGGGGGAACGCCTGATTCCCCCTGTTACATTTGATCTGTTCATGAGA
                           |||    |      |     || |    | | ||||||    |   | | || | | | || ||  || ||||| ||    |||    |  || | |||   ||| |||||||| |||| | ||||||||||    |||||| |||||||||||||||||||||||||||||||  ||||||||||| |||||||  |||||||||||
gtatcacttagtataaagctctaattagtaacatcatggtgttgctgtgctccctattatagagcaccatgattttattttaacacatttcgaaaatatttgtagttctaacacctcatgttgttt-gtgtgtagAATTTTATCTGTCACCAAAGCTCGTTCTATCTTATTGAATGGTGCTGTTAGAAAGGGGGAACGCCTAGTTCCCCCTGTTTCATTTGACTTGTTCATGAGA
















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|29645275|gb|CB650282.1|CB650282
EST:     CCAAGTGGGAATCCCCAGACGAGAGATTTAGTTCTGCAGTTGCTCGAAAG                         AATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAG
genomic: CCAAGTGGGAATCCCCAGACGAGAGATTTAGTTCTGCAGTTGCTCGAAAGgtatggctca ... tcacgtgcagAATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAG
EST: gi|40493511|gb|BX900802.1|BX900802
EST:     CCAAGTGGGAATCCCCAGACGAGAGATTTAGTTCTGCAGTTGCTCGAAAG                         AATTTTGTCTGCCCCCAAAGCTCGAGACATCTTACTGAATGGTGCTGTTAG
genomic: CCAAGTGGGAATCCCCAGACGAGAGATTTAGTTCTGCAGTTGCTCGAAAGgtatggctca ... tcacgtgcagAATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAG
EST: gi|27548128|gb|CA766270.2|CA766270
EST:     CCAAGTGGGAATCCCCAGACGAGAGATTTAGTTCTGCAGTTGCTCGAAAG                         AATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAG
genomic: CCAAGTGGGAATCCCCAGACGAGAGATTTAGTTCTGCAGTTGCTCGAAAGgtatggctca ... tcacgtgcagAATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAG
EST: gi|29645235|gb|CB650242.1|CB650242
EST:     CCAAGTGGGAATCCCCAGACGAGAGATTTAGTTCTGCAGTTGCTCGAAAG                         AATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAG
genomic: CCAAGTGGGAATCCCCAGACGAGAGATTTAGTTCTGCAGTTGCTCGAAAGgtatggctca ... tcacgtgcagAATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatatatatcagaagtatttatatgcataatcttttttgatatttcacgtgcagAATTTTGTCTGCCCCCAAAGCTCGAGGCATCTTACTGAATGGTGCTGTTAGAAAGGGGGAACGCCTGATTCCCCCTGTTACATTTGATCTGTTCATGAGA
                tatttatatgcataat  TA-rich tract