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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACATAATGGACAGGGGCACAGATGCTCGTAACTTTCTGTTGGGAAATGTGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAACAGgtactgcattctggtcattctcatgacttcgtgagcgaactcattctgtatgtctgtatgataaccatagcttccagatggtgtagttgtctagcatcag...

Basic information

species Oryza sativa
transcript LOC_Os01g69130.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G180335_T01 (Zea mays), 5'ss of exon 4
GGACATAATGGACAGGGGCACAGATGCTCGTAACTTTCTGTTGGGAAATGTGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAACAGgtactgcattctggtcattctcatgacttcgtgagcgaactcattct-gtatgtctgtatgataaccatagcttc--cagatggtgtagttgtctagcatcag--
||| ||||||||||||||||| ||||| || ||||||||| ||||||||||||| || |||  ||| |||||||||||||| || |||||||| || |||||||| | ||||      | || ||  |  |         ||   |  || ||||    |||   ||  | || |  ||     | |||   |      |     
GGATATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAATGTGATCCCCTTAAAACTTGGCTATGTTGGTGTTGTTAACCGCAGCCAGCAGgtacttctttct-----ctatcttggttaaggttattggttcgcacaagtttgtcgaactgaaggcctcatctgcatcaacaattatagcgtttccatcttgttg

upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G129155_T02 (Zea mays), 5'ss of exon 4
GGACATAATGGACAGGGGCACAGATGCTCGTAACTTTCTGTTGGGAAATGTGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAACAGgtactgcattctggtcattctcatgacttcgtgagcgaactcattct-gtatgtctgtatgataaccatagcttccagatggtgtagttgtctagcatcag
||||||||||||||||||||| ||||| || ||||||||| ||||||||||||| || |||   || |||||||||||||| || |||||||| || ||||||||    |||  ||  | || ||  |  |         |    |  || ||||    | |   |   | || |   |    | | |    |  ||||  
GGACATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAATGTGATCCCCTTAAAGCTTGGCTATGTTGGTGTCGTCAACCGCAGCCAGCAGgtacttttctctc-tctctatcttggttaaggttattggtttgcacaagtttgtcgaacttaaggcttcatctgcatcaacaagaattgtgtttccatctt

upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S49_216V6.1 (Physcomitrella patens), 5'ss of exon 6
GGACATAATGGACAGGGGCACAGATGCTCGTAACTTTCTGTTGGGAAATGTGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAACAGgtactgcattctggtcattctcatgacttcgtgagcgaactcattctgtatgtctgtatgataaccatagcttccagatggtgtagttgtctagcatcag--
||| || ||||| || || |||||||| || || |||||  | |||||||| |||||||||||||| |||||| |||| || |||||| | || ||| ||||||| |    || |  ||        || |||   | |   |     | || || ||  ||    | |   |  ||||| || |      | |  | |   
GGATATTATGGATAGAGGAACAGATGCGCGGAATTTTCTTCTAGGAAATGTCATTCCATTACGACTTGGCTATATTGGGGTTGTAAACAGGAGCCAAGAGgtacttctacttgctttttgattgatgtttgtgtatgtaacgaacacatctggctctac-atgctaagattgtggagatgatgcaaa-actttgtgttatat

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|86826290|gb|CI311113.1|CI311113
EST:     TGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAACAG                         GATATCAAATCAGATCTCAGTATCAAGGAAGCTCTGGCGCGCGAAGAAAGT
genomic: TGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAACAGgtactgcatt ... ggcgatgcagGATATCAAATCAGATCTCAGTATCAAGGAAGCTCTGGCGCGCGAAGAAAGT
EST: gi|58654479|gb|CK043159.1|CK043159
EST:     TGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAACAG                         GATATCAAATCAGATCTCAGTATCAAGGAAGCTCTGGCGCGCGAAGAAAGT
genomic: TGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAACAGgtactgcatt ... ggcgatgcagGATATCAAATCAGATCTCAGTATCAAGGAAGCTCTGGCGCGCGAAGAAAGT
EST: gi|29655723|gb|CB651998.1|CB651998
EST:     TGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAACAG                         GATATCAAATCACATCTCAGTATCAAGGAAGCTCTGGCGCGCGAAGAAAGT
genomic: TGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAACAGgtactgcatt ... ggcgatgcagGATATCAAATCAGATCTCAGTATCAAGGAAGCTCTGGCGCGCGAAGAAAGT