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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTCGTAGATCAGCTCGAGCTCGCCGCCATGTCGTCCAGCGAGGTCGCCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttactacaccttcacccctatcttgattttgcttttcttggcttggggtggatttggtgtgtgagattgattatttattttgttggtgatttggtgacgagcag

Basic information

species Oryza sativa
transcript LOC_Os08g02340.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g02340.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G032315_T01 (Zea mays), 5'ss of exon 2
--AGTTCGTAGATCAGCTCGAGCTCGCCGCCATGTCGTCCAGCGAGGTCGCCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttactacaccttcacccctatcttgattttgcttttcttggcttggggtg---gatttggtgtgtgagat---tgattatttattttgttggtgatttggtgacgagcag
   || ||  ||   |     || ||   ||||| | ||| ||||| | ||||||||   |||||| |||||||||  ||||||||||||| ||||||||||||||  || | || || || |   ||   ||||   | ||   ||||    |    ||   |||| | |||||   ||||| ||  | || ||||                  
GTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCTCCGGCGAGCTTGCCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtc-cttctccctcgccgccggctc--ttttaaatctccccgcttattctttttgagcgggtgag-gagatgcgtgattgttcctcttcttggcag---------------

upper sequence: LOC_Os08g02340.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G157443_T02 (Zea mays), 5'ss of exon 2
--AGTTCG--TAGATCAGCTCGAGCTCGCCGCCATGTCGTCCAGCGAGGTCGCCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttactacac-cttcacccctatcttgattttgc--ttttcttggcttggggtggatttggtgtgtgagattgattatttattttgttggtgatttggtgacgagcag
   || ||  ||||  |   ||  | |||  ||||| | ||| | ||| ||||||||||   ||||||||||||||||  |||||| |||||| |||||||||||||||    ||| || ||    | | || || |     |||||||   || | | || |   ||| || |  | |    | | | ||||| |                  
TCCGTCCGGTTAGACGAAGCCG--CCCGCACCCATGGCCTCCGGTGAGCTCGCCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctctcacgctgcagtgttcttttaatctcagagttttcttttttttgagcgg-tcgcgtg-gttatgtggggggtgtttcttgtttgcag---------------

upper sequence: LOC_Os08g02340.1 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S134_153V6.1 (Physcomitrella patens), 5'ss of exon 1
---AGTTCGTAGATCAGCTCGAGCTCGCCGCCATGTCGTCCAGCGAGGTCGCCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttactacaccttcacccctatcttgattttgcttttcttggcttggggtggatttggtgtgtgagattgattatttattttgttggtgatttggtgacgagcag
   ||  | |     |   ||   ||||| ||||||||  ||| ||||||||||||||   ||||  |||||| || ||||||||||||||| ||||||| || ||  || ||   |  | ||||| ||| ||  | |   |   || ||||   |  |||  |   |   |||  || | || |||||  ||| | | |||        
TGCAGCGCTTGCGCTAAACCGC-TTCGCCACCATGTCGATCAGTGAGGTCGCCTGCACTTACGCCTGCCTCATTCTTCACGACGATGGCATCGCCATCACGgtacgc-acgac-tgtcgaaccctaactt-atcgttcgagttagggtttggttggagttttctcgttcgcattagtt-tgtagtttgtgcgtgctgtcgtggtt-----

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|33674593|gb|CF302832.1|CF302832
EST:     CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACC                         TCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
genomic: CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttact ... tgacgagcagTCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
EST: gi|55433761|gb|CV729994.1|CV729994
EST:     CTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGC-TNCCCCATCACC                         TCTGAGAAGATCACCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
genomic: CTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCAT-CCCCATCACCgtgcgttact ... tgacgagcagTCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
EST: gi|86891478|gb|CI308094.1|CI308094
EST:     CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACC                         TCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
genomic: CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttact ... tgacgagcagTCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
EST: gi|55411397|gb|CV723773.1|CV723773
EST:     CGCCCTCATCCTCCACGACGATGGCATCCCCATCACC                         TCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
genomic: CGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttact ... tgacgagcagTCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
EST: gi|427778|gb|D23916.1|D23916
EST:     CCTGCACGCTCGCCGNCCTCATCCTCCACGACGATGGCATCCCCATCACC                         TCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
genomic: CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttact ... tgacgagcagTCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
EST: gi|87004734|gb|CI306818.1|CI306818
EST:     CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACC                         TCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
genomic: CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttact ... tgacgagcagTCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
EST: gi|86901148|gb|CI306337.1|CI306337
EST:     CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATCGCATCCCCATCACC                         TCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
genomic: CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttact ... tgacgagcagTCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
EST: gi|55433803|gb|CV730015.1|CV730015
EST:     CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACC                         TCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
genomic: CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttact ... tgacgagcagTCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
EST: gi|38471074|gb|CF955205.1|CF955205
EST:     CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATTGCATCCCCATCACC                         TCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
genomic: CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttact ... tgacgagcagTCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
EST: gi|87012559|gb|CI307307.1|CI307307
EST:     CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACC                         TCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC
genomic: CCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttact ... tgacgagcagTCTGAGAAGATCGCCACCCTGGTGAAGGCGGCCAACATCAAGGTCGAGGCC